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FreeBSD Ports: Biology
Software related to biology.
- FastTree-2.1.10
- Approximately-maximum-likelihood phylogenetic trees from alignments
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6
- InsightToolkit-4.13.0_1
- Insight Toolkit
Long description | Changes | Main Web Site
Maintained by: woodsb02@FreeBSD.org
Requires: binutils-2.30_2,1, ca_root_nss-3.35, cmake-3.10.2, curl-7.58.0_1, expat-2.2.5, fftw-2.1.5_15, gcc-ecj-4.5, gcc6-6.4.0_3, gdcm-2.6.3_2, gettext-runtime-0.19.8.1_1, gmp-6.1.2, googletest-1.8.0.450, hdf-szip-2.1_2, hdf5-1.10.1_1, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, jsoncpp-1.8.1_2, lcms2-2.9, libarchive-3.3.2,1, libffi-3.2.1_2, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libuv-1.19.1, lzo2-2.10_1, mpc-1.0.3, mpfr-3.1.6, ninja-1.8.2,2, openjpeg15-1.5.2_1, png-1.6.34, python27-2.7.14_1, readline-7.0.3_1, rhash-1.3.5, tiff-4.0.9_1
Also listed in: Science
- MOOSE-neural-simulator-3.1.2
- Multiphysics Object Oriented Simulation Environment
Long description | Changes | Main Web Site
Maintained by: yuri@FreeBSD.org
Requires: atk-2.24.0, avahi-app-0.6.31_6, bash-4.4.19, binutils-2.30_2,1, blas-3.5.0_3, ca_root_nss-3.35, cairo-1.14.8_1,2, cblas-1.0_7, cmake-3.10.2, compositeproto-0.4.2, cups-2.2.6, curl-7.58.0_1, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontcacheproto-0.1.3, fontconfig-2.12.1,1, freetype2-2.8_1, gcc-ecj-4.5, gcc6-6.4.0_3, gdbm-1.13_1, gdk-pixbuf2-2.36.9, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, gmp-6.1.2, gnome_subr-1.0, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, graphviz-2.40.1_3, gsl-2.4, gstreamer-0.10.36_6, gstreamer-plugins-0.10.36_8,3, gtk-update-icon-cache-2.24.31, gtk2-2.24.31, harfbuzz-1.7.5, hdf-szip-2.1_2, hdf5-1.10.1_1, hicolor-icon-theme-0.15, icu-60.2_2,1, indexinfo-0.3.1, inputproto-2.3.2, jasper-1.900.1_17, jbigkit-2.1_1, jpeg-turbo-1.5.3, jsoncpp-1.8.1_2, kbproto-1.0.7, lapack-3.5.0_3, lcms-1.19_6,1, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXScrnSaver-1.2.2_3, libXau-1.0.8_3, libXaw-1.0.13,2, libXcomposite-0.4.4_3,1, libXcursor-1.1.15, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXfontcache-1.0.5_3, libXft-2.3.2_1, libXi-1.7.9,1, libXinerama-1.1.3_3,1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrandr-1.5.1, libXrender-0.9.10, libXt-1.1.5,1, libXv-1.0.11,1, libXxf86vm-1.1.4_1, libarchive-3.3.2,1, libdaemon-0.14_1, libdrm-2.4.89,1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libglade2-2.6.4_8, libiconv-1.14_11, libidn2-2.0.4, libltdl-2.4.6, liblz4-1.8.1.2,1, libmng-1.0.10_3, libnghttp2-1.30.0, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libsbml-5.16.0, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libuv-1.19.1, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, lzo2-2.10_1, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mpc-1.0.3, mpfr-3.1.6, nettle-3.4, openblas-0.2.20_1,1, orc-0.4.25, p11-kit-0.23.9, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, png-1.6.34, printproto-1.0.5, py27-cycler-0.10.0, py27-gobject-2.28.6_7, py27-gtk2-2.24.0_4, py27-matplotlib-1.5.3_3, py27-networkx-1.10_3, py27-numpy-1.13.3_1,1, py27-pygraphviz-1.3.1, py27-pyparsing-2.2.0, py27-pytz-2017.3,1, py27-scikit-sparse-0.2_4, py27-scipy-0.19.0_4, py27-setuptools-38.5.1, py27-sip-4.19.6,1, py27-six-1.11.0, py27-suds-jurko-0.6, py27-tkinter-2.7.14_6, py27-yaml-3.11_2, py36-cairo-1.14.1, py36-dateutil-2.6.1, py36-decorator-4.2.1, py36-qt4-core-4.12.1,1, py36-qt4-gui-4.12.1,1, py36-qt4-test-4.12.1,1, py36-tornado-4.5.3, python2-2_3, python27-2.7.14_1, python36-3.6.4, qscintilla2-2.9.1,1, qt4-assistant-4.8.7_1, qt4-clucene-4.8.7_2, qt4-corelib-4.8.7_11, qt4-declarative-4.8.7_1, qt4-designer-4.8.7_1, qt4-doc-4.8.7_1, qt4-gui-4.8.7_3, qt4-help-4.8.7_2, qt4-iconengines-4.8.7_2, qt4-imageformats-4.8.7_2, qt4-inputmethods-4.8.7_2, qt4-network-4.8.7_3, qt4-opengl-4.8.7_3, qt4-qt3support-4.8.7_2, qt4-script-4.8.7_3, qt4-sql-4.8.7_2, qt4-sqlite-plugin-4.8.7_4, qt4-svg-4.8.7_2, qt4-testlib-4.8.7_2, qt4-webkit-4.8.7_3, qt4-xml-4.8.7_2, qt4-xmlpatterns-4.8.7_2, qtchooser-39, randrproto-1.5.0, readline-7.0.3_1, renderproto-0.11.1, rhash-1.3.5, scrnsaverproto-1.2.2, shared-mime-info-1.8, sqlite3-3.21.0_1, suitesparse-4.0.2_7, tcl86-8.6.8, tiff-4.0.9_1, tk86-8.6.8_2, tpm-emulator-0.7.4_2, trousers-0.3.14_2, videoproto-2.3.3, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xdg-utils-1.1.1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xineramaproto-1.2.1, xmlcatmgr-2.2_2, xorg-fonts-truetype-7.7_1, xprop-1.2.2, xproto-7.0.31, xset-1.2.3_1
Also listed in: Science
- afni-2015.11.13_5
- Advanced Functional Neuro Imaging
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: R-3.4.3_1, avahi-app-0.6.31_6, binutils-2.30_2,1, ca_root_nss-3.35, cairo-1.14.8_1,2, cups-2.2.6, curl-7.58.0_1, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dejavu-2.37, dri2proto-2.8, dri3proto-1.0, encodings-1.0.4_4,1, endian-1.1, expat-2.2.5, f2c-20060810_6, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gcc-ecj-4.5, gcc6-6.4.0_3, gdbm-1.13_1, gettext-runtime-0.19.8.1_1, gettext-tools-0.19.8.1, ghostscript9-agpl-base-9.16_5, glib-2.50.3_1,1, glproto-1.4.17, gmake-4.2.1_1, gmp-6.1.2, gnome_subr-1.0, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, gsfonts-8.11_8, gsl-2.4, harfbuzz-1.7.5, hdf-szip-2.1_2, hdf5-1.10.1_1, icu-60.2_2,1, indexinfo-0.3.1, inputproto-2.3.2, jasper-1.900.1_17, jbig2dec-0.14, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, lcms2-2.9, libGLU-9.0.0_3, libGLw-8.0.0_3, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXScrnSaver-1.2.2_3, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXi-1.7.9,1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdaemon-0.14_1, libdrm-2.4.89,1, libffi-3.2.1_2, libfontenc-1.1.3_1, libiconv-1.14_11, libidn-1.33_1, libidn2-2.0.4, libnghttp2-1.30.0, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, m4-1.4.18,1, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mpc-1.0.3, mpeg_encode-1.5b, mpfr-3.1.6, netcdf-4.6.0, netcdf-fortran-4.4.4_4, netpbm-10.80.00, nettle-3.4, open-motif-2.3.8, openmp-5.0.1, p11-kit-0.23.9, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python2-2_3, python27-2.7.14_1, qhull5-1.0_3, readline-7.0.3_1, renderproto-0.11.1, scrnsaverproto-1.2.2, svgalib-1.4.3_7, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, xbitmaps-1.1.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Science, Graphics
- ariadne-1.3
- Programs to compare protein sequences and profiles
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
- artemis-9_2
- DNA sequence viewer and annotation tool
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: alsa-lib-1.1.2, dejavu-2.37, expat-2.2.5, fixesproto-5.0, fontconfig-2.12.1,1, freetype2-2.8_1, giflib-5.1.4, inputproto-2.3.2, java-zoneinfo-2017.c, javavmwrapper-2.6, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXi-1.7.9,1, libXrender-0.9.10, libXt-1.1.5,1, libXtst-1.2.3, libfontenc-1.1.3_1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, mkfontdir-1.0.7, mkfontscale-1.1.2, openjdk8-8.162.12, recordproto-1.14.2, renderproto-0.11.1, xextproto-7.3.0, xproto-7.0.31
Also listed in: Java
- avida-2.12.4
- Auto-adaptive genetic system designed for ALife research
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: ca_root_nss-3.35, cmake-3.10.2, curl-7.58.0_1, expat-2.2.5, gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, jsoncpp-1.8.1_2, libarchive-3.3.2,1, libffi-3.2.1_2, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libuv-1.19.1, lzo2-2.10_1, ninja-1.8.2,2, python27-2.7.14_1, readline-7.0.3_1, rhash-1.3.5
- babel-1.6_4
- Converts among various molecular file formats
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Also listed in: Converters
- bcftools-1.6
- Tools for manipulating next-generation sequencing data
Long description | Changes | Main Web Site
Maintained by: cartwright@asu.edu
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, ca_root_nss-3.35, curl-7.58.0_1, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gsl-2.4, htslib-1.6, indexinfo-0.3.1, libnghttp2-1.30.0, m4-1.4.18,1, perl5-5.24.3
- bedtools-2.25.0
- Toolset for genome arithmetic
Long description | Changes | Main Web Site
Maintained by: scottcheloha@gmail.com
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libffi-3.2.1_2, python27-2.7.14_1, readline-7.0.3_1
- biococoa-2.2.2_4
- Bioinformatics framework
Long description | Changes | Main Web Site
Maintained by: theraven@FreeBSD.org
Requires: avahi-app-0.6.31_6, ca_root_nss-3.35, cairo-1.14.8_1,2, cups-2.2.6, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dri2proto-2.8, expat-2.2.5, fixesproto-5.0, flac-1.3.2, flite-1.4_1, fontconfig-2.12.1,1, freetype2-2.8_1, gdbm-1.13_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, gmake-4.2.1_1, gmp-6.1.2, gnome_subr-1.0, gnustep-back-0.25.1_1, gnustep-base-1.25.0_3, gnustep-gui-0.25.1_3, gnustep-make-2.7.0_1, gnutls-3.5.17, gobject-introspection-1.50.0,1, icu-60.2_2,1, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libGLU-9.0.0_3, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXcursor-1.1.15, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libao-1.2.0_3, libdaemon-0.14_1, libdrm-2.4.89,1, libffi-3.2.1_2, libgcrypt-1.8.2, libgpg-error-1.27, libiconv-1.14_11, libidn2-2.0.4, libobjc2-1.8.1, libogg-1.3.3,4, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libsndfile-1.0.28, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libvorbis-1.3.5_1,3, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, libxslt-1.1.29_1, mesa-libs-17.3.1, nettle-3.4, p11-kit-0.23.9, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, png-1.6.34, python2-2_3, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xproto-7.0.31
Also listed in: Gnustep
- blat-36
- Fast tool for local sequence similarity searches
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, liblz4-1.8.1.2,1, mysql56-client-5.6.39_1, perl5-5.24.3, png-1.6.34
- bowtie-1.1.2_4
- Ultrafast, memory-efficient short read aligner
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, perl5-5.24.3, python27-2.7.14_1, readline-7.0.3_1
- bowtie2-2.3.3.1
- Ultrafast, memory-efficient short read aligner
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libffi-3.2.1_2, perl5-5.24.3, python27-2.7.14_1, readline-7.0.3_1, tbb-2018.2
- bwa-0.7.17
- Burrows-Wheeler sequence aligner
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, perl5-5.24.3
- canu-1.6_1
- Single molecule sequence assembler
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: ORBit2-2.14.19_2, alsa-lib-1.1.2, atk-2.24.0, avahi-app-0.6.31_6, binutils-2.30_2,1, boost-libs-1.66.0, ca_root_nss-3.35, cairo-1.14.8_1,2, compositeproto-0.4.2, cups-2.2.6, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dconf-0.26.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gcc-ecj-4.5, gcc6-6.4.0_3, gconf2-3.2.6_5, gdbm-1.13_1, gdk-pixbuf2-2.36.9, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, gmake-4.2.1_1, gmp-6.1.2, gnome_subr-1.0, gnuplot-5.2.2, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, gstreamer-0.10.36_6, gstreamer-plugins-0.10.36_8,3, gtk-update-icon-cache-2.24.31, gtk2-2.24.31, harfbuzz-1.7.5, hicolor-icon-theme-0.15, icu-60.2_2,1, indexinfo-0.3.1, inputproto-2.3.2, jasper-1.900.1_17, java-zoneinfo-2017.c, javavmwrapper-2.6, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libGLU-9.0.0_3, libICE-1.0.9_1,1, libIDL-0.8.14_3, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXcomposite-0.4.4_3,1, libXcursor-1.1.15, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXi-1.7.9,1, libXinerama-1.1.3_3,1, libXrandr-1.5.1, libXrender-0.9.10, libXt-1.1.5,1, libXtst-1.2.3, libXv-1.0.11,1, libXxf86vm-1.1.4_1, libdaemon-0.14_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libidn2-2.0.4, libmspack-0.5, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, lua53-5.3.4_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mpc-1.0.3, mpfr-3.1.6, nettle-3.4, nspr-4.18, openjdk8-8.162.12, orc-0.4.25, p11-kit-0.23.9, pango-1.40.6, pangox-compat-0.0.2_2, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, png-1.6.34, polkit-0.113_5, python2-2_3, python27-2.7.14_1, randrproto-1.5.0, readline-7.0.3_1, recordproto-1.14.2, renderproto-0.11.1, shared-mime-info-1.8, spidermonkey170-17.0.0_8, tex-kpathsea-6.2.1_1, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, videoproto-2.3.3, webp-0.6.1, wx28-gtk2-2.8.12_7, wx28-gtk2-common-2.8.12_7, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xineramaproto-1.2.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Java, Perl5
- cd-hit-4.6.6_2
- Clustering and comparing protein or nucleotide sequences
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6
- cdbfasta-2010.07.22
- Fast indexing and retrieval of FASTA records from flat file databases
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
- chemeq-1.50_2
- Outputs LaTeX code for chemical reaction
Long description | Changes
Maintained by: ports@FreeBSD.org
Requires: bison-3.0.4,1, gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, m4-1.4.18,1
Also listed in: Textproc
- clustalw-2.1_1
- Multiple alignment program for DNA or proteins
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- consed-27.0
- Graphical tool for editing Phrap assemblies
Long description | Changes | Main Web Site
Maintained by: mzaki@m.u-tokyo.ac.jp
Requires: linux-c6-expat-2.0.1_5, linux-c6-fontconfig-2.8.0_3, linux-c6-xorg-libs-7.4_10, linux_base-c6-6.9_6, perl5-5.24.3, phrap-1.090518, phred-0.020425.c
- crux-1.2.0_8
- Software toolkit for phylogenetic inference
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, python27-2.7.14_1, readline-7.0.3_1
Also listed in: Python
- cycle-0.3.1_10
- Calendar program for women
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: ORBit2-2.14.19_2, atk-2.24.0, avahi-app-0.6.31_6, ca_root_nss-3.35, cairo-1.14.8_1,2, cantarell-fonts-0.0.25, compositeproto-0.4.2, cups-2.2.6, curl-7.58.0_1, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dconf-0.26.1, dejavu-2.37, dri2proto-2.8, enchant-1.6.0_7, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gconf2-3.2.6_5, gdbm-1.13_1, gdk-pixbuf2-2.36.9, geoclue-2.4.3, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glib-networking-2.50.0, glproto-1.4.17, gmp-6.1.2, gnome_subr-1.0, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, gsettings-desktop-schemas-3.18.1, gstreamer-0.10.36_6, gstreamer-plugins-0.10.36_8,3, gstreamer1-1.12.3, gstreamer1-plugins-1.12.3, gtk-update-icon-cache-2.24.31, gtk2-2.24.31, harfbuzz-1.7.5, harfbuzz-icu-1.7.5, hicolor-icon-theme-0.15, hunspell-1.6.2, icu-60.2_2,1, indexinfo-0.3.1, inputproto-2.3.2, iso-codes-3.76, jasper-1.900.1_17, jbigkit-2.1_1, jpeg-turbo-1.5.3, json-glib-1.2.8, kbproto-1.0.7, libGLU-9.0.0_3, libICE-1.0.9_1,1, libIDL-0.8.14_3, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXcomposite-0.4.4_3,1, libXcursor-1.1.15, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXi-1.7.9,1, libXinerama-1.1.3_3,1, libXrandr-1.5.1, libXrender-0.9.10, libXt-1.1.5,1, libXv-1.0.11,1, libXxf86vm-1.1.4_1, libdaemon-0.14_1, libdrm-2.4.89,1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgcrypt-1.8.2, libgpg-error-1.27, libiconv-1.14_11, libidn2-2.0.4, libmspack-0.5, libnghttp2-1.30.0, libpaper-1.1.24.4, libpciaccess-0.13.5, libproxy-0.4.12, libpthread-stubs-0.4, libsecret-0.18.5, libsoup-2.54.1, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, libxslt-1.1.29_1, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, nettle-3.4, nspr-4.18, orc-0.4.25, p11-kit-0.23.9, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, png-1.6.34, polkit-0.113_5, py27-setuptools-38.5.1, py27-wxPython-common-3.0.2.0_4, py27-wxPython30-3.0.2.0_4, python2-2_3, python27-2.7.14_1, randrproto-1.5.0, readline-7.0.3_1, renderproto-0.11.1, shared-mime-info-1.8, spidermonkey170-17.0.0_8, sqlite3-3.21.0_1, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, videoproto-2.3.3, webkit-gtk2-2.4.11_14, webp-0.6.1, wx30-gtk2-3.0.2_7, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xineramaproto-1.2.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Deskutils, Python
- diamond-0.9.17
- BLAST-compatible local sequence aligner
Long description | Changes | Main Web Site
Maintained by: jrm@FreeBSD.org
Requires: ca_root_nss-3.35, cmake-3.10.2, curl-7.58.0_1, expat-2.2.5, gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, jsoncpp-1.8.1_2, libarchive-3.3.2,1, libffi-3.2.1_2, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libuv-1.19.1, lzo2-2.10_1, ninja-1.8.2,2, python27-2.7.14_1, readline-7.0.3_1, rhash-1.3.5
- emboss-6.6.0_3
- Collection of open source tools for genetic sequence analysis
Long description | Changes | Main Web Site
Maintained by: wen@FreeBSD.org
Requires: clustalw-2.1_1, expat-2.2.5, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, gmake-4.2.1_1, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libgd-2.2.4_1,1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, open-motif-2.3.8, png-1.6.34, primer3-2.3.6, printproto-1.0.5, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xbitmaps-1.1.1, xextproto-7.3.0, xproto-7.0.31
- fasta-21.1.1
- Collection of programs for searching DNA and protein databases
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- fasta3-36.3.8
- Collection of programs for searching DNA and protein databases
Long description | Changes | Main Web Site
Maintained by: wendell@bsd.com.br
- fastdnaml-1.2.2_2
- Faster DNAML, makes phylogenetic trees using maximum likelihood
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- fastool-0.1.4
- Simple and quick FastQ and FastA tool for file reading and conversion
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
- fastqc-0.11.5
- Quality control tool for high throughput sequence data
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: alsa-lib-1.1.2, dejavu-2.37, expat-2.2.5, fixesproto-5.0, fontconfig-2.12.1,1, freetype2-2.8_1, giflib-5.1.4, inputproto-2.3.2, java-zoneinfo-2017.c, javavmwrapper-2.6, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXi-1.7.9,1, libXrender-0.9.10, libXt-1.1.5,1, libXtst-1.2.3, libfontenc-1.1.3_1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, mkfontdir-1.0.7, mkfontscale-1.1.2, openjdk8-8.162.12, perl5-5.24.3, recordproto-1.14.2, renderproto-0.11.1, xextproto-7.3.0, xproto-7.0.31
Also listed in: Java, Perl5
- fastx_toolkit-0.0.14
- CLI tools for Short-Reads FASTA/FASTQ files preprocessing
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, indexinfo-0.3.1, libgtextutils-0.7, libtool-2.4.6, m4-1.4.18,1, perl5-5.24.3, pkgconf-1.4.1,1
- fluctuate-1.40
- Program to fit population models
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- garlic-1.6_1
- Molecular viewer, editor, and visualization program
Long description | Changes | Main Web Site
Maintained by: maho@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, kbproto-1.0.7, libX11-1.6.5,1, libXau-1.0.8_3, libXdmcp-1.1.2, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, xproto-7.0.31
- gff2ps-0.98d_2
- Converts gff-formated genomic data-sets to PostScript
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: bash-4.4.19, gawk-4.1.4_1, gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, libsigsegv-2.11, readline-7.0.3_1
- gmap-2015.09.21
- Genomic Mapping and Alignment Program for mRNA and EST Sequences
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, perl5-5.24.3
- gperiodic-2.0.10_8
- Displays a periodic table of the elements
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: atk-2.24.0, avahi-app-0.6.31_6, ca_root_nss-3.35, cairo-1.14.8_1,2, compositeproto-0.4.2, cups-2.2.6, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gdbm-1.13_1, gdk-pixbuf2-2.36.9, gettext-runtime-0.19.8.1_1, gettext-tools-0.19.8.1, glib-2.50.3_1,1, glproto-1.4.17, gmp-6.1.2, gnome_subr-1.0, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, gtk-update-icon-cache-2.24.31, gtk2-2.24.31, harfbuzz-1.7.5, hicolor-icon-theme-0.15, indexinfo-0.3.1, inputproto-2.3.2, jasper-1.900.1_17, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXcomposite-0.4.4_3,1, libXcursor-1.1.15, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXi-1.7.9,1, libXinerama-1.1.3_3,1, libXrandr-1.5.1, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdaemon-0.14_1, libdrm-2.4.89,1, libffi-3.2.1_2, libfontenc-1.1.3_1, libiconv-1.14_11, libidn2-2.0.4, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, nettle-3.4, p11-kit-0.23.9, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, python2-2_3, python27-2.7.14_1, randrproto-1.5.0, readline-7.0.3_1, renderproto-0.11.1, shared-mime-info-1.8, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xineramaproto-1.2.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
- grappa-2.0
- Genome Rearrangements Analysis and Phylogeny Software
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
- hmmer-3.1b2
- Profile hidden Markov models for biological sequence analysis
Long description | Changes | Main Web Site
Maintained by: mzaki@niid.go.jp
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
- htslib-1.6
- C library for high-throughput sequencing data formats
Long description | Changes | Main Web Site
Maintained by: cartwright@asu.edu
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, ca_root_nss-3.35, curl-7.58.0_1, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libnghttp2-1.30.0, m4-1.4.18,1, perl5-5.24.3
Also listed in: Devel
- io_lib-1.14.9
- General purpose trace file (and Experiment File) reading interface
Long description | Changes | Main Web Site
Maintained by: danilo@FreeBSD.org
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, ca_root_nss-3.35, curl-7.58.0_1, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libnghttp2-1.30.0, libtool-2.4.6, m4-1.4.18,1, perl5-5.24.3
- iqtree-1.6.1_2
- Efficient phylogenomic software by maximum likelihood
Long description | Changes | Main Web Site
Maintained by: jrm@FreeBSD.org
Requires: binutils-2.30_2,1, ca_root_nss-3.35, cmake-3.10.2, curl-7.58.0_1, eigen-3.3.4, expat-2.2.5, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, jsoncpp-1.8.1_2, libarchive-3.3.2,1, libffi-3.2.1_2, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libuv-1.19.1, lzo2-2.10_1, mpc-1.0.3, mpfr-3.1.6, ninja-1.8.2,2, python27-2.7.14_1, readline-7.0.3_1, rhash-1.3.5
- jalview-2.07_2
- Viewer and editor for multiple sequence alignments
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: alsa-lib-1.1.2, apache-ant-1.9.7, dejavu-2.37, expat-2.2.5, fixesproto-5.0, fontconfig-2.12.1,1, freetype2-2.8_1, giflib-5.1.4, inputproto-2.3.2, java-zoneinfo-2017.c, javavmwrapper-2.6, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXi-1.7.9,1, libXrender-0.9.10, libXt-1.1.5,1, libXtst-1.2.3, libfontenc-1.1.3_1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, mkfontdir-1.0.7, mkfontscale-1.1.2, openjdk8-8.162.12, recordproto-1.14.2, renderproto-0.11.1, xextproto-7.3.0, xproto-7.0.31
Also listed in: Java
- jellyfish-2.2.6_2
- Fast, memory-efficient counting of k-mers in DNA
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libedit-3.1.20170329_2,1, libffi-3.2.1_2, libtool-2.4.6, libunwind-20170615, libyaml-0.1.6_2, m4-1.4.18,1, perl5-5.24.3, pkgconf-1.4.1,1, ruby-2.4.3,1, yaggo-1.5.9
- kallisto-0.43.1
- Quantify abundances of transcripts from RNA-Seq data
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: ca_root_nss-3.35, cmake-3.10.2, curl-7.58.0_1, expat-2.2.5, gettext-runtime-0.19.8.1_1, hdf-szip-2.1_2, hdf5-1.10.1_1, indexinfo-0.3.1, jsoncpp-1.8.1_2, libarchive-3.3.2,1, libffi-3.2.1_2, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libuv-1.19.1, lzo2-2.10_1, ninja-1.8.2,2, python27-2.7.14_1, readline-7.0.3_1, rhash-1.3.5
- lagan-2.0_1
- Efficient tools for large-scale multiple alignments of genomic DNA
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: perl5-5.24.3
- lamarc-2.1.8_1
- Package of programs for computing population parameters
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- libgtextutils-0.7
- Gordon's text utilities
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, indexinfo-0.3.1, libtool-2.4.6, m4-1.4.18,1, perl5-5.24.3, pkgconf-1.4.1,1
- libsbml-5.16.0
- API Library for Working with SBML File
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: ca_root_nss-3.35, cmake-3.10.2, curl-7.58.0_1, expat-2.2.5, gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, jsoncpp-1.8.1_2, libarchive-3.3.2,1, libffi-3.2.1_2, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libuv-1.19.1, libxml2-2.9.7, lzo2-2.10_1, ninja-1.8.2,2, python27-2.7.14_1, readline-7.0.3_1, rhash-1.3.5
Also listed in: Devel
- linux-foldingathome-5.04
- Distributed client for Protein Folding
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Maintained by: onatan@gmail.com
Requires: linux_base-c6-6.9_6
- mafft-7.266
- Multiple alignment program for amino acid or nucleotide sequences
Long description | Changes | Main Web Site
Maintained by: cartwright@asu.edu
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
- mapm3-3.0
- Constructs linkage maps of markers segregating in experimental crosses
Long description | Changes | Main Web Site
Maintained by: tphilipp@potion-studios.com
- migrate-3.6.11
- Program to estimate population sizes and migration rates
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- minc2-2.2.00_6
- Medical Imaging NetCDF
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, bash-4.4.19, bison-3.0.4,1, ca_root_nss-3.35, curl-7.58.0_1, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, hdf-szip-2.1_2, hdf5-1.10.1_1, indexinfo-0.3.1, libnghttp2-1.30.0, libtool-2.4.6, m4-1.4.18,1, netcdf-4.6.0, perl5-5.24.3, pkgconf-1.4.1,1
Also listed in: Science
- molden-5.7_13
- Display molecular orbitals and electron densities in 2D and 3D
Long description | Changes | Main Web Site
Maintained by: jmd@FreeBSD.org
Requires: binutils-2.30_2,1, damageproto-1.2.1, dri2proto-2.8, dri3proto-1.0, expat-2.2.5, fixesproto-5.0, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, glproto-1.4.17, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, kbproto-1.0.7, libGLU-9.0.0_3, libX11-1.6.5,1, libXau-1.0.8_3, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mpc-1.0.3, mpfr-3.1.6, pciids-20171206, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xproto-7.0.31
- mopac-7.1.15_3
- Semi-empirical (MNDO, etc.) molecular orbital calculation
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6
- mrbayes-3.1.2_2
- Bayesian inference of phylogeny
Long description | Changes | Main Web Site
Maintained by: mzaki@m.u-tokyo.ac.jp
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, readline-7.0.3_1
- mummer-3.23_2
- Modular system for rapid whole genome alignment
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, perl5-5.24.3
- muscle-3.8.31
- MUltiple Sequence Comparison by Log-Expectation
Long description | Changes | Main Web Site
Maintained by: mzaki@m.u-tokyo.ac.jp
- ncbi-blast-2.5.0_2
- NCBI implementation of Basic Local Alignment Search Tool
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, p5-Exporter-Tiny-1.000000, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, pcre-8.40_1, perl5-5.24.3, python27-2.7.14_1, readline-7.0.3_1
- ncbi-toolkit-2012.06.20_1
- NCBI development toolkit, including BLAST 2 and GenBank/Entrez support
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: expat-2.2.5, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, open-motif-2.3.8, png-1.6.34, printproto-1.0.5, renderproto-0.11.1, xbitmaps-1.1.1, xextproto-7.3.0, xproto-7.0.31
- njplot-2.4
- Phylogenetic tree drawing program
Long description | Changes | Main Web Site
Maintained by: jrm@FreeBSD.org
Requires: expat-2.2.5, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, ncbi-toolkit-2012.06.20_1, open-motif-2.3.8, png-1.6.34, printproto-1.0.5, renderproto-0.11.1, xbitmaps-1.1.1, xextproto-7.3.0, xproto-7.0.31
- p5-AcePerl-1.92_5
- Perl5 interface to the ACEDB genome database system
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: p5-Cache-2.11, p5-Cache-Cache-1.08, p5-Digest-SHA1-2.13_1, p5-Error-0.17025, p5-File-NFSLock-1.21_1, p5-Heap-0.80_1, p5-IO-String-1.08_1, p5-IPC-ShareLite-0.17_1, p5-TimeDate-2.30_2,1, perl5-5.24.3
Also listed in: Databases, Perl5
- p5-Bio-ASN1-EntrezGene-1.72_1
- Regular expression-based Perl Parser for NCBI Entrez Gene
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: cairo-1.14.8_1,2, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mysql56-client-5.6.39_1, p5-Algorithm-Munkres-0.08_1, p5-Array-Compare-3.0.0, p5-Authen-NTLM-1.09_1, p5-BioPerl-1.007002, p5-CGI-4.38, p5-Class-Method-Modifiers-2.12, p5-Clone-0.38, p5-Convert-Binary-C-0.78, p5-Crypt-RC4-2.02_1, p5-DBD-mysql-4.046, p5-DBI-1.640, p5-Data-OptList-0.110, p5-Data-Stag-0.14_2, p5-Devel-GlobalDestruction-0.14, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Digest-Perl-MD5-1.9_1, p5-Encode-Locale-1.05, p5-Error-0.17025, p5-Exporter-Tiny-1.000000, p5-ExtUtils-PkgConfig-1.16, p5-File-Listing-6.04_1, p5-File-Slurp-Tiny-0.004, p5-GD-2.67, p5-Graph-0.96_2,1, p5-GraphViz-2.24, p5-HTML-Element-Extended-1.18_1, p5-HTML-Parser-3.72, p5-HTML-TableExtract-2.15, p5-HTML-Tagset-3.20_1, p5-HTML-Tree-5.07, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-Hash-FieldHash-0.15, p5-Heap-0.80_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-IO-String-1.08_1, p5-IO-Tty-1.12_2, p5-IO-stringy-2.111, p5-IPC-Run-0.96, p5-Inline-0.80, p5-Inline-C-0.78, p5-JSON-XS-3.04, p5-LWP-MediaTypes-6.02_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-Math-Derivative-1.01, p5-Math-Spline-0.02_1, p5-Module-Runtime-0.016, p5-Moo-2.003004, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-OLE-Storage_Lite-0.19_1, p5-Params-Util-1.07_2, p5-Parse-RecDescent-1.967.009_2, p5-Pegex-0.64, p5-PostScript-0.06_2, p5-Ref-Util-XS-0.117, p5-Role-Tiny-2.000006, p5-SVG-2.82, p5-SVG-Graph-0.04_1, p5-Scalar-List-Utils-1.48,1, p5-Set-Scalar-1.26_1, p5-Sort-Naturally-1.03_1, p5-Spreadsheet-ParseExcel-0.65_2,1, p5-Statistics-Descriptive-3.0609_1, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Install-0.928_1, p5-Sub-Quote-2.005000, p5-Text-Iconv-1.7_3, p5-Tie-IxHash-1.23_1, p5-Tree-DAG_Node-1.30, p5-Try-Tiny-0.28, p5-Type-Tie-0.009_1, p5-Type-Tiny-1.002001, p5-Type-Tiny-XS-0.012_1, p5-Types-Serialiser-1.0_1, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-XML-DOM-1.44_1, p5-XML-DOM-XPath-0.14_1, p5-XML-Filter-BufferText-1.01_1, p5-XML-LibXML-2.0132,1, p5-XML-NamespaceSupport-1.12, p5-XML-Parser-2.44, p5-XML-RegExp-0.04_1, p5-XML-SAX-0.99_2, p5-XML-SAX-Base-1.09, p5-XML-SAX-Expat-0.51_1, p5-XML-SAX-Writer-0.57, p5-XML-Simple-2.24, p5-XML-Twig-3.52, p5-XML-Writer-0.625_1, p5-XML-XPath-1.42, p5-XML-XPathEngine-0.14_1, p5-YAML-1.14, p5-YAML-LibYAML-0.67, p5-common-sense-3.74, p5-libwww-6.31, p5-libxml-0.08_1, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Perl5
- p5-Bio-Coordinate-1.007001
- Modules for working with biological coordinates
Long description | Changes | Main Web Site
Maintained by: sunpoet@FreeBSD.org
Requires: cairo-1.14.8_1,2, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mysql56-client-5.6.39_1, p5-Algorithm-Munkres-0.08_1, p5-Array-Compare-3.0.0, p5-Authen-NTLM-1.09_1, p5-BioPerl-1.007002, p5-CGI-4.38, p5-Class-Method-Modifiers-2.12, p5-Clone-0.38, p5-Convert-Binary-C-0.78, p5-Crypt-RC4-2.02_1, p5-DBD-mysql-4.046, p5-DBI-1.640, p5-Data-OptList-0.110, p5-Data-Stag-0.14_2, p5-Devel-GlobalDestruction-0.14, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Digest-Perl-MD5-1.9_1, p5-Encode-Locale-1.05, p5-Error-0.17025, p5-Exporter-Tiny-1.000000, p5-ExtUtils-PkgConfig-1.16, p5-File-Listing-6.04_1, p5-File-Slurp-Tiny-0.004, p5-GD-2.67, p5-Graph-0.96_2,1, p5-GraphViz-2.24, p5-HTML-Element-Extended-1.18_1, p5-HTML-Parser-3.72, p5-HTML-TableExtract-2.15, p5-HTML-Tagset-3.20_1, p5-HTML-Tree-5.07, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-Hash-FieldHash-0.15, p5-Heap-0.80_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-IO-String-1.08_1, p5-IO-Tty-1.12_2, p5-IO-stringy-2.111, p5-IPC-Run-0.96, p5-Inline-0.80, p5-Inline-C-0.78, p5-JSON-XS-3.04, p5-LWP-MediaTypes-6.02_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-Math-Derivative-1.01, p5-Math-Spline-0.02_1, p5-Module-Runtime-0.016, p5-Moo-2.003004, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-OLE-Storage_Lite-0.19_1, p5-Params-Util-1.07_2, p5-Parse-RecDescent-1.967.009_2, p5-Pegex-0.64, p5-PostScript-0.06_2, p5-Ref-Util-XS-0.117, p5-Role-Tiny-2.000006, p5-SVG-2.82, p5-SVG-Graph-0.04_1, p5-Scalar-List-Utils-1.48,1, p5-Set-Scalar-1.26_1, p5-Sort-Naturally-1.03_1, p5-Spreadsheet-ParseExcel-0.65_2,1, p5-Statistics-Descriptive-3.0609_1, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Install-0.928_1, p5-Sub-Quote-2.005000, p5-Text-Iconv-1.7_3, p5-Tie-IxHash-1.23_1, p5-Tree-DAG_Node-1.30, p5-Try-Tiny-0.28, p5-Type-Tie-0.009_1, p5-Type-Tiny-1.002001, p5-Type-Tiny-XS-0.012_1, p5-Types-Serialiser-1.0_1, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-XML-DOM-1.44_1, p5-XML-DOM-XPath-0.14_1, p5-XML-Filter-BufferText-1.01_1, p5-XML-LibXML-2.0132,1, p5-XML-NamespaceSupport-1.12, p5-XML-Parser-2.44, p5-XML-RegExp-0.04_1, p5-XML-SAX-0.99_2, p5-XML-SAX-Base-1.09, p5-XML-SAX-Expat-0.51_1, p5-XML-SAX-Writer-0.57, p5-XML-Simple-2.24, p5-XML-Twig-3.52, p5-XML-Writer-0.625_1, p5-XML-XPath-1.42, p5-XML-XPathEngine-0.14_1, p5-YAML-1.14, p5-YAML-LibYAML-0.67, p5-common-sense-3.74, p5-libwww-6.31, p5-libxml-0.08_1, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Perl5
- p5-Bio-Das-1.17_4
- Client-side library for Distributed Genome Annotation System
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: cairo-1.14.8_1,2, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mysql56-client-5.6.39_1, p5-Algorithm-Munkres-0.08_1, p5-Array-Compare-3.0.0, p5-Authen-NTLM-1.09_1, p5-BioPerl-1.007002, p5-CGI-4.38, p5-Class-Method-Modifiers-2.12, p5-Clone-0.38, p5-Convert-Binary-C-0.78, p5-Crypt-RC4-2.02_1, p5-DBD-mysql-4.046, p5-DBI-1.640, p5-Data-OptList-0.110, p5-Data-Stag-0.14_2, p5-Devel-GlobalDestruction-0.14, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Digest-Perl-MD5-1.9_1, p5-Encode-Locale-1.05, p5-Error-0.17025, p5-Exporter-Tiny-1.000000, p5-ExtUtils-PkgConfig-1.16, p5-File-Listing-6.04_1, p5-File-Slurp-Tiny-0.004, p5-GD-2.67, p5-Graph-0.96_2,1, p5-GraphViz-2.24, p5-HTML-Element-Extended-1.18_1, p5-HTML-Parser-3.72, p5-HTML-TableExtract-2.15, p5-HTML-Tagset-3.20_1, p5-HTML-Tree-5.07, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-Hash-FieldHash-0.15, p5-Heap-0.80_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-IO-String-1.08_1, p5-IO-Tty-1.12_2, p5-IO-stringy-2.111, p5-IPC-Run-0.96, p5-Inline-0.80, p5-Inline-C-0.78, p5-JSON-XS-3.04, p5-LWP-MediaTypes-6.02_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-Math-Derivative-1.01, p5-Math-Spline-0.02_1, p5-Module-Runtime-0.016, p5-Moo-2.003004, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-OLE-Storage_Lite-0.19_1, p5-Params-Util-1.07_2, p5-Parse-RecDescent-1.967.009_2, p5-Pegex-0.64, p5-PostScript-0.06_2, p5-Ref-Util-XS-0.117, p5-Role-Tiny-2.000006, p5-SVG-2.82, p5-SVG-Graph-0.04_1, p5-Scalar-List-Utils-1.48,1, p5-Set-Scalar-1.26_1, p5-Sort-Naturally-1.03_1, p5-Spreadsheet-ParseExcel-0.65_2,1, p5-Statistics-Descriptive-3.0609_1, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Install-0.928_1, p5-Sub-Quote-2.005000, p5-Text-Iconv-1.7_3, p5-Tie-IxHash-1.23_1, p5-Tree-DAG_Node-1.30, p5-Try-Tiny-0.28, p5-Type-Tie-0.009_1, p5-Type-Tiny-1.002001, p5-Type-Tiny-XS-0.012_1, p5-Types-Serialiser-1.0_1, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-XML-DOM-1.44_1, p5-XML-DOM-XPath-0.14_1, p5-XML-Filter-BufferText-1.01_1, p5-XML-LibXML-2.0132,1, p5-XML-NamespaceSupport-1.12, p5-XML-Parser-2.44, p5-XML-RegExp-0.04_1, p5-XML-SAX-0.99_2, p5-XML-SAX-Base-1.09, p5-XML-SAX-Expat-0.51_1, p5-XML-SAX-Writer-0.57, p5-XML-Simple-2.24, p5-XML-Twig-3.52, p5-XML-Writer-0.625_1, p5-XML-XPath-1.42, p5-XML-XPathEngine-0.14_1, p5-YAML-1.14, p5-YAML-LibYAML-0.67, p5-common-sense-3.74, p5-libwww-6.31, p5-libxml-0.08_1, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Perl5
- p5-Bio-Das-Lite-2.11_1
- Perl extension for the DAS (HTTP+XML) Protocol
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: ca_root_nss-3.35, curl-7.58.0_1, libnghttp2-1.30.0, p5-Authen-NTLM-1.09_1, p5-Digest-HMAC-1.03_1, p5-Encode-Locale-1.05, p5-File-Listing-6.04_1, p5-HTML-Parser-3.72, p5-HTML-Tagset-3.20_1, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-LWP-MediaTypes-6.02_1, p5-Module-Build-0.4224, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-Readonly-2.05, p5-Try-Tiny-0.28, p5-URI-1.73, p5-WWW-Curl-4.17_2, p5-WWW-RobotRules-6.02_1, p5-libwww-6.31, perl5-5.24.3
Also listed in: Perl5
- p5-Bio-FeatureIO-1.6.905
- Handler for FeatureIO
Long description | Changes | Main Web Site
Maintained by: sunpoet@FreeBSD.org
Requires: cairo-1.14.8_1,2, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mysql56-client-5.6.39_1, p5-Algorithm-Munkres-0.08_1, p5-Array-Compare-3.0.0, p5-Authen-NTLM-1.09_1, p5-BioPerl-1.007002, p5-CGI-4.38, p5-Class-Method-Modifiers-2.12, p5-Clone-0.38, p5-Convert-Binary-C-0.78, p5-Crypt-RC4-2.02_1, p5-DBD-mysql-4.046, p5-DBI-1.640, p5-Data-OptList-0.110, p5-Data-Stag-0.14_2, p5-Devel-GlobalDestruction-0.14, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Digest-Perl-MD5-1.9_1, p5-Encode-Locale-1.05, p5-Error-0.17025, p5-Exporter-Tiny-1.000000, p5-ExtUtils-PkgConfig-1.16, p5-File-Listing-6.04_1, p5-File-Slurp-Tiny-0.004, p5-GD-2.67, p5-Graph-0.96_2,1, p5-GraphViz-2.24, p5-HTML-Element-Extended-1.18_1, p5-HTML-Parser-3.72, p5-HTML-TableExtract-2.15, p5-HTML-Tagset-3.20_1, p5-HTML-Tree-5.07, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-Hash-FieldHash-0.15, p5-Heap-0.80_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-IO-String-1.08_1, p5-IO-Tty-1.12_2, p5-IO-stringy-2.111, p5-IPC-Run-0.96, p5-Inline-0.80, p5-Inline-C-0.78, p5-JSON-XS-3.04, p5-LWP-MediaTypes-6.02_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-Math-Derivative-1.01, p5-Math-Spline-0.02_1, p5-Module-Runtime-0.016, p5-Moo-2.003004, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-OLE-Storage_Lite-0.19_1, p5-Params-Util-1.07_2, p5-Parse-RecDescent-1.967.009_2, p5-Pegex-0.64, p5-PostScript-0.06_2, p5-Ref-Util-XS-0.117, p5-Role-Tiny-2.000006, p5-SVG-2.82, p5-SVG-Graph-0.04_1, p5-Scalar-List-Utils-1.48,1, p5-Set-Scalar-1.26_1, p5-Sort-Naturally-1.03_1, p5-Spreadsheet-ParseExcel-0.65_2,1, p5-Statistics-Descriptive-3.0609_1, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Install-0.928_1, p5-Sub-Quote-2.005000, p5-Text-Iconv-1.7_3, p5-Tie-IxHash-1.23_1, p5-Tree-DAG_Node-1.30, p5-Try-Tiny-0.28, p5-Type-Tie-0.009_1, p5-Type-Tiny-1.002001, p5-Type-Tiny-XS-0.012_1, p5-Types-Serialiser-1.0_1, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-XML-DOM-1.44_1, p5-XML-DOM-XPath-0.14_1, p5-XML-Filter-BufferText-1.01_1, p5-XML-LibXML-2.0132,1, p5-XML-NamespaceSupport-1.12, p5-XML-Parser-2.44, p5-XML-RegExp-0.04_1, p5-XML-SAX-0.99_2, p5-XML-SAX-Base-1.09, p5-XML-SAX-Expat-0.51_1, p5-XML-SAX-Writer-0.57, p5-XML-Simple-2.24, p5-XML-Twig-3.52, p5-XML-Writer-0.625_1, p5-XML-XPath-1.42, p5-XML-XPathEngine-0.14_1, p5-YAML-1.14, p5-YAML-LibYAML-0.67, p5-common-sense-3.74, p5-libwww-6.31, p5-libxml-0.08_1, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Perl5
- p5-Bio-GFF3-2.0_2
- Fast low-level functions for parsing and formatting GFF3
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: p5-Exporter-Tiny-1.000000, p5-File-ReadBackwards-1.05_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-URI-1.73, perl5-5.24.3
Also listed in: Perl5
- p5-Bio-Glite-0.10_2
- Perl Interface to G-language
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: p5-Authen-NTLM-1.09_1, p5-Digest-HMAC-1.03_1, p5-Encode-Locale-1.05, p5-File-Listing-6.04_1, p5-HTML-Parser-3.72, p5-HTML-Tagset-3.20_1, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-LWP-MediaTypes-6.02_1, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-Try-Tiny-0.28, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-libwww-6.31, perl5-5.24.3
Also listed in: Perl5
- p5-Bio-Graphics-2.40_2
- Generate GD Images of Bio::Seq Objects
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: ca_root_nss-3.35, cairo-1.14.8_1,2, curl-7.58.0_1, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, io_lib-1.14.9, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mysql56-client-5.6.39_1, p5-Algorithm-Munkres-0.08_1, p5-Array-Compare-3.0.0, p5-Authen-NTLM-1.09_1, p5-Bio-Coordinate-1.007001, p5-Bio-SCF-1.03_1, p5-BioPerl-1.007002, p5-CGI-4.38, p5-Class-Method-Modifiers-2.12, p5-Clone-0.38, p5-Convert-Binary-C-0.78, p5-Crypt-RC4-2.02_1, p5-DBD-mysql-4.046, p5-DBI-1.640, p5-Data-OptList-0.110, p5-Data-Stag-0.14_2, p5-Devel-GlobalDestruction-0.14, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Digest-Perl-MD5-1.9_1, p5-Encode-Locale-1.05, p5-Error-0.17025, p5-Exporter-Tiny-1.000000, p5-ExtUtils-PkgConfig-1.16, p5-File-Listing-6.04_1, p5-File-Slurp-Tiny-0.004, p5-GD-2.67, p5-GD-SVG-0.33_6, p5-Graph-0.96_2,1, p5-GraphViz-2.24, p5-HTML-Element-Extended-1.18_1, p5-HTML-Parser-3.72, p5-HTML-TableExtract-2.15, p5-HTML-Tagset-3.20_1, p5-HTML-Tree-5.07, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-Hash-FieldHash-0.15, p5-Heap-0.80_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-IO-String-1.08_1, p5-IO-Tty-1.12_2, p5-IO-stringy-2.111, p5-IPC-Run-0.96, p5-Inline-0.80, p5-Inline-C-0.78, p5-JSON-XS-3.04, p5-LWP-MediaTypes-6.02_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-Math-Derivative-1.01, p5-Math-Spline-0.02_1, p5-Module-Build-0.4224, p5-Module-Runtime-0.016, p5-Moo-2.003004, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-OLE-Storage_Lite-0.19_1, p5-Params-Util-1.07_2, p5-Parse-RecDescent-1.967.009_2, p5-Pegex-0.64, p5-PostScript-0.06_2, p5-Ref-Util-XS-0.117, p5-Role-Tiny-2.000006, p5-SVG-2.82, p5-SVG-Graph-0.04_1, p5-Scalar-List-Utils-1.48,1, p5-Set-Scalar-1.26_1, p5-Sort-Naturally-1.03_1, p5-Spreadsheet-ParseExcel-0.65_2,1, p5-Statistics-Descriptive-3.0609_1, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Install-0.928_1, p5-Sub-Quote-2.005000, p5-Text-Iconv-1.7_3, p5-Tie-IxHash-1.23_1, p5-Tree-DAG_Node-1.30, p5-Try-Tiny-0.28, p5-Type-Tie-0.009_1, p5-Type-Tiny-1.002001, p5-Type-Tiny-XS-0.012_1, p5-Types-Serialiser-1.0_1, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-XML-DOM-1.44_1, p5-XML-DOM-XPath-0.14_1, p5-XML-Filter-BufferText-1.01_1, p5-XML-LibXML-2.0132,1, p5-XML-NamespaceSupport-1.12, p5-XML-Parser-2.44, p5-XML-RegExp-0.04_1, p5-XML-SAX-0.99_2, p5-XML-SAX-Base-1.09, p5-XML-SAX-Expat-0.51_1, p5-XML-SAX-Writer-0.57, p5-XML-Simple-2.24, p5-XML-Twig-3.52, p5-XML-Writer-0.625_1, p5-XML-XPath-1.42, p5-XML-XPathEngine-0.14_1, p5-YAML-1.14, p5-YAML-LibYAML-0.67, p5-common-sense-3.74, p5-libwww-6.31, p5-libxml-0.08_1, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Perl5
- p5-Bio-MAGETAB-1.31_1
- Data model and utility API for the MAGE-TAB format
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: p5-Algorithm-C3-0.10_1, p5-B-Hooks-EndOfScope-0.21, p5-Carp-Clan-6.06, p5-Class-C3-0.33, p5-Class-Data-Inheritable-0.08_1, p5-Class-Inspector-1.32, p5-Class-Load-0.24, p5-Class-Load-XS-0.10, p5-Class-Method-Modifiers-2.12, p5-Class-Singleton-1.5_1, p5-Data-OptList-0.110, p5-Date-Manip-6.60, p5-DateTime-1.45, p5-DateTime-Format-DateManip-0.04_1, p5-DateTime-Locale-1.17, p5-DateTime-TimeZone-2.13,1, p5-Devel-GlobalDestruction-0.14, p5-Devel-OverloadInfo-0.005, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Dist-CheckConflicts-0.11_1, p5-Email-Valid-1.200, p5-Eval-Closure-0.14, p5-Exception-Class-1.44, p5-File-ShareDir-1.104, p5-IO-Socket-IP-0.39, p5-MRO-Compat-0.13, p5-Mail-Tools-2.19, p5-Module-Implementation-0.09_1, p5-Module-Runtime-0.016, p5-Module-Runtime-Conflicts-0.003_1, p5-Moose-2.2009,1, p5-MooseX-FollowPBP-0.05_1, p5-MooseX-Types-0.50, p5-Net-DNS-1.15,1, p5-Net-Domain-TLD-1.74, p5-Package-DeprecationManager-0.17_1, p5-Package-Stash-0.37_1, p5-Package-Stash-XS-0.28_2, p5-Params-Coerce-0.14_2, p5-Params-Util-1.07_2, p5-Params-Validate-1.29, p5-Params-ValidationCompiler-0.26, p5-Parse-RecDescent-1.967.009_2, p5-Role-Tiny-2.000006, p5-Scalar-List-Utils-1.48,1, p5-Specio-0.42, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-ForMethods-0.100052, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Identify-0.14, p5-Sub-Install-0.928_1, p5-Sub-Name-0.21,1, p5-Sub-Quote-2.005000, p5-Text-CSV_XS-1.34, p5-TimeDate-2.30_2,1, p5-Try-Tiny-0.28, p5-URI-1.73, p5-Variable-Magic-0.62, p5-namespace-autoclean-0.28, p5-namespace-clean-0.27, perl5-5.24.3
Also listed in: Perl5
- p5-Bio-NEXUS-0.78_1
- Object-oriented Perl API for the NEXUS file format
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: p5-Clone-PP-1.07, perl5-5.24.3
Also listed in: Perl5
- p5-Bio-Phylo-2.0.1
- Phylogenetic analysis using Perl
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: cairo-1.14.8_1,2, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, 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Also listed in: Perl5
- p5-Bio-SCF-1.03_1
- Read and Update SCF Chromatographic Sequence Files
Long description | Changes | Main Web Site
Maintained by: wen@FreeBSD.org
Requires: ca_root_nss-3.35, curl-7.58.0_1, io_lib-1.14.9, libnghttp2-1.30.0, perl5-5.24.3
Also listed in: Perl5
- p5-BioPerl-1.007002
- Collection of Perl modules for bioinformatics
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: cairo-1.14.8_1,2, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mysql56-client-5.6.39_1, p5-Algorithm-Munkres-0.08_1, p5-Array-Compare-3.0.0, p5-Authen-NTLM-1.09_1, p5-CGI-4.38, p5-Class-Method-Modifiers-2.12, p5-Clone-0.38, p5-Convert-Binary-C-0.78, p5-Crypt-RC4-2.02_1, p5-DBD-mysql-4.046, p5-DBI-1.640, p5-Data-OptList-0.110, p5-Data-Stag-0.14_2, p5-Devel-GlobalDestruction-0.14, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Digest-Perl-MD5-1.9_1, p5-Encode-Locale-1.05, p5-Error-0.17025, p5-Exporter-Tiny-1.000000, p5-ExtUtils-PkgConfig-1.16, p5-File-Listing-6.04_1, p5-File-Slurp-Tiny-0.004, p5-GD-2.67, p5-Graph-0.96_2,1, p5-GraphViz-2.24, p5-HTML-Element-Extended-1.18_1, p5-HTML-Parser-3.72, p5-HTML-TableExtract-2.15, p5-HTML-Tagset-3.20_1, p5-HTML-Tree-5.07, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-Hash-FieldHash-0.15, p5-Heap-0.80_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-IO-String-1.08_1, p5-IO-Tty-1.12_2, p5-IO-stringy-2.111, p5-IPC-Run-0.96, p5-Inline-0.80, p5-Inline-C-0.78, p5-JSON-XS-3.04, p5-LWP-MediaTypes-6.02_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-Math-Derivative-1.01, p5-Math-Spline-0.02_1, p5-Module-Build-0.4224, p5-Module-Runtime-0.016, p5-Moo-2.003004, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-OLE-Storage_Lite-0.19_1, p5-Params-Util-1.07_2, p5-Parse-RecDescent-1.967.009_2, p5-Pegex-0.64, p5-PostScript-0.06_2, p5-Ref-Util-XS-0.117, p5-Role-Tiny-2.000006, p5-SVG-2.82, p5-SVG-Graph-0.04_1, p5-Scalar-List-Utils-1.48,1, p5-Set-Scalar-1.26_1, p5-Sort-Naturally-1.03_1, p5-Spreadsheet-ParseExcel-0.65_2,1, p5-Statistics-Descriptive-3.0609_1, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Install-0.928_1, p5-Sub-Quote-2.005000, p5-Text-Iconv-1.7_3, p5-Tie-IxHash-1.23_1, p5-Tree-DAG_Node-1.30, p5-Try-Tiny-0.28, p5-Type-Tie-0.009_1, p5-Type-Tiny-1.002001, p5-Type-Tiny-XS-0.012_1, p5-Types-Serialiser-1.0_1, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-XML-DOM-1.44_1, p5-XML-DOM-XPath-0.14_1, p5-XML-Filter-BufferText-1.01_1, p5-XML-LibXML-2.0132,1, p5-XML-NamespaceSupport-1.12, p5-XML-Parser-2.44, p5-XML-RegExp-0.04_1, p5-XML-SAX-0.99_2, p5-XML-SAX-Base-1.09, p5-XML-SAX-Expat-0.51_1, p5-XML-SAX-Writer-0.57, p5-XML-Simple-2.24, p5-XML-Twig-3.52, p5-XML-Writer-0.625_1, p5-XML-XPath-1.42, p5-XML-XPathEngine-0.14_1, p5-YAML-1.14, p5-YAML-LibYAML-0.67, p5-common-sense-3.74, p5-libwww-6.31, p5-libxml-0.08_1, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Perl5
- p5-BioPerl-Run-1.007002
- Wrapper modules for common bioinformatics tools
Long description | Changes | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: cairo-1.14.8_1,2, damageproto-1.2.1, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, graphite2-1.3.10, graphviz-2.40.1_3, harfbuzz-1.7.5, indexinfo-0.3.1, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libedit-3.1.20170329_2,1, libevent-2.1.8_1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libiconv-1.14_11, libltdl-2.4.6, liblz4-1.8.1.2,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mysql56-client-5.6.39_1, p5-Algorithm-Diff-1.1903, p5-Algorithm-Munkres-0.08_1, p5-Array-Compare-3.0.0, p5-Authen-NTLM-1.09_1, p5-Bio-FeatureIO-1.6.905, p5-BioPerl-1.007002, p5-CGI-4.38, p5-Class-Method-Modifiers-2.12, p5-Clone-0.38, p5-Config-Any-0.32, p5-Config-General-2.63, p5-Config-Tiny-2.23, p5-Convert-Binary-C-0.78, p5-Cpanel-JSON-XS-4.01, p5-Crypt-RC4-2.02_1, p5-DBD-mysql-4.046, p5-DBI-1.640, p5-Data-OptList-0.110, p5-Data-Stag-0.14_2, p5-Devel-GlobalDestruction-0.14, p5-Devel-StackTrace-2.03, p5-Digest-HMAC-1.03_1, p5-Digest-Perl-MD5-1.9_1, p5-Encode-Locale-1.05, p5-Error-0.17025, p5-Exporter-Tiny-1.000000, p5-ExtUtils-PkgConfig-1.16, p5-File-Listing-6.04_1, p5-File-Slurp-Tiny-0.004, p5-File-Sort-1.01_1, p5-GD-2.67, p5-Graph-0.96_2,1, p5-GraphViz-2.24, p5-HTML-Element-Extended-1.18_1, p5-HTML-Parser-3.72, p5-HTML-TableExtract-2.15, p5-HTML-Tagset-3.20_1, p5-HTML-Tree-5.07, p5-HTTP-Cookies-6.04, p5-HTTP-Daemon-6.01_1, p5-HTTP-Date-6.02_1, p5-HTTP-Message-6.14, p5-HTTP-Negotiate-6.01_1, p5-Hash-FieldHash-0.15, p5-Heap-0.80_1, p5-IO-HTML-1.001_1, p5-IO-Socket-SSL-2.051, p5-IO-String-1.08_1, p5-IO-Tty-1.12_2, p5-IO-stringy-2.111, p5-IPC-Run-0.96, p5-Inline-0.80, p5-Inline-C-0.78, p5-JSON-XS-3.04, p5-LWP-MediaTypes-6.02_1, p5-List-MoreUtils-0.428, p5-List-MoreUtils-XS-0.428, p5-Math-Derivative-1.01, p5-Math-Spline-0.02_1, p5-Module-Build-0.4224, p5-Module-Pluggable-5.2, p5-Module-Runtime-0.016, p5-Moo-2.003004, p5-Mozilla-CA-20160104, p5-Net-HTTP-6.17, p5-Net-SSLeay-1.84, p5-OLE-Storage_Lite-0.19_1, p5-Params-Util-1.07_2, p5-Parse-RecDescent-1.967.009_2, p5-Pegex-0.64, p5-PostScript-0.06_2, p5-Ref-Util-XS-0.117, p5-Role-Tiny-2.000006, p5-SVG-2.82, p5-SVG-Graph-0.04_1, p5-Scalar-List-Utils-1.48,1, p5-Set-Scalar-1.26_1, p5-Sort-Naturally-1.03_1, p5-Spreadsheet-ParseExcel-0.65_2,1, p5-Statistics-Descriptive-3.0609_1, p5-Sub-Exporter-0.987_1, p5-Sub-Exporter-Progressive-0.001013, p5-Sub-Install-0.928_1, p5-Sub-Quote-2.005000, p5-Text-Iconv-1.7_3, p5-Tie-IxHash-1.23_1, p5-Tree-DAG_Node-1.30, p5-Try-Tiny-0.28, p5-Type-Tie-0.009_1, p5-Type-Tiny-1.002001, p5-Type-Tiny-XS-0.012_1, p5-Types-Serialiser-1.0_1, p5-URI-1.73, p5-WWW-RobotRules-6.02_1, p5-XML-DOM-1.44_1, p5-XML-DOM-XPath-0.14_1, p5-XML-Filter-BufferText-1.01_1, p5-XML-LibXML-2.0132,1, p5-XML-NamespaceSupport-1.12, p5-XML-Parser-2.44, p5-XML-RegExp-0.04_1, p5-XML-SAX-0.99_2, p5-XML-SAX-Base-1.09, p5-XML-SAX-Expat-0.51_1, p5-XML-SAX-Writer-0.57, p5-XML-Simple-2.24, p5-XML-Twig-3.52, p5-XML-Writer-0.625_1, p5-XML-XPath-1.42, p5-XML-XPathEngine-0.14_1, p5-YAML-1.14, p5-YAML-LibYAML-0.67, p5-common-sense-3.74, p5-libwww-6.31, p5-libxml-0.08_1, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, printproto-1.0.5, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, tiff-4.0.9_1, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Perl5
- p5-TrimGalore-0.4.5
- Wrapper around Cutadapt and FastQC for adapter and quality trimming
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: alsa-lib-1.1.2, dejavu-2.37, expat-2.2.5, fastqc-0.11.5, fixesproto-5.0, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, indexinfo-0.3.1, inputproto-2.3.2, java-zoneinfo-2017.c, javavmwrapper-2.6, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXi-1.7.9,1, libXrender-0.9.10, libXt-1.1.5,1, libXtst-1.2.3, libffi-3.2.1_2, libfontenc-1.1.3_1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, mkfontdir-1.0.7, mkfontscale-1.1.2, openjdk8-8.162.12, perl5-5.24.3, py27-setuptools-38.5.1, py36-cutadapt-1.14, py36-xopen-0.2.1, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1, recordproto-1.14.2, renderproto-0.11.1, xextproto-7.3.0, xproto-7.0.31
Also listed in: Perl5
- p5-transdecoder-2.1.0
- Identify candidate coding regions within transcript sequences
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: binutils-2.30_2,1, cd-hit-4.6.6_2, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6, p5-URI-1.73, perl5-5.24.3
Also listed in: Perl5
- paml-4.9c_1
- Phylogenetic Analysis by Maximum Likelihood (PAML)
Long description | Changes | Main Web Site
Maintained by: jrm@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
- phrap-1.090518
- Phrap is a program for assembling shotgun DNA sequence data
Long description | Changes | Main Web Site
Maintained by: mzaki@m.u-tokyo.ac.jp
- phred-0.020425.c
- Base calling and quality value assignment on DNA sequencing
Long description | Changes | Main Web Site
Maintained by: mzaki@m.u-tokyo.ac.jp
- phylip-3.697
- Phylogeny Inference Package
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: bash-4.4.19, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXaw-1.0.13,2, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXmu-1.1.2_3,1, libXp-1.0.3,1, libXpm-3.5.12, libXt-1.1.5,1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, printproto-1.0.5, xextproto-7.3.0, xproto-7.0.31
- phyml-3.3.20180129
- Simple, fast, and accurate algorithm to estimate large phylogenies
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, indexinfo-0.3.1, libtool-2.4.6, m4-1.4.18,1, perl5-5.24.3, pkgconf-1.4.1,1
- plink-1.07_7
- Whole genome association analysis toolset
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, mpc-1.0.3, mpfr-3.1.6
Also listed in: Science
- plinkseq-0.10_1
- Toolset for working with human genetic variation data
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
Also listed in: Science
- primer3-2.3.6
- Primer3 helps to choose primers for PCR reactions
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1
- protomol-2.0.3_13
- OO, component based, framework for molecular dynamics (MD) simulations
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: damageproto-1.2.1, expat-2.2.5, fixesproto-5.0, freeglut-3.0.0_1, inputproto-2.3.2, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libGLU-9.0.0_3, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXi-1.7.9,1, libXmu-1.1.2_3,1, libXrandr-1.5.1, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, pciids-20171206, png-1.6.34, randrproto-1.5.0, renderproto-0.11.1, tiff-4.0.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xproto-7.0.31
- psi88-1.0_11
- Plotting wavefunctions (molecular orbitals) in 3D
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6
- py27-biom-format-2.1.6_1
- Biological Observation Matrix (BIOM) Format Project
Long description | Changes | Main Web Site
Maintained by: jrm@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, hdf-szip-2.1_2, hdf5-1.10.1_1, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, perl5-5.24.3, postgresql95-client-9.5.11, py27-click-6.7, py27-h5py-2.7.0, py27-numpy-1.13.3_1,1, py27-pyqi-0.3.2, py27-pytz-2017.3,1, py27-scipy-0.19.0_4, py27-setuptools-38.5.1, py27-six-1.11.0, py34-sqlite3-3.4.7_7, py36-bottleneck-1.2.1, py36-dateutil-2.6.1, py36-future-0.16.0, py36-numexpr-2.6.4, py36-pandas-0.22.0, python27-2.7.14_1, python34-3.4.7, python36-3.6.4, readline-7.0.3_1, sqlite3-3.21.0_1, suitesparse-4.0.2_7
Also listed in: Python
- py27-biopython-1.70
- Collection of Python modules for bioinformatics
Long description | Changes | Main Web Site
Maintained by: mauricio@arareko.net
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-numpy-1.13.3_1,1, py27-reportlab1-1.21.2_3, py27-setuptools-38.5.1, python2-2_3, python27-2.7.14_1, readline-7.0.3_1, suitesparse-4.0.2_7
Also listed in: Python
- py27-bx-python-0.8.1
- Python module for reading, manipulating and writing genomic data sets
Long description | Changes | Main Web Site
Maintained by: yuri@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, lzo2-2.10_1, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-numpy-1.13.3_1,1, py27-setuptools-38.5.1, py36-cython-0.26, py36-python-lzo-1.11, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1, suitesparse-4.0.2_7
Also listed in: Python
- py27-cutadapt-1.14
- Finds and removes adapter sequences, primers, poly-A tails, etc
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, libffi-3.2.1_2, py27-setuptools-38.5.1, py36-xopen-0.2.1, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1
Also listed in: Python
- py27-macs2-2.1.0.p20170505
- Analysis of chromatin immunoprecipitation (ChIP) sequences
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-numpy-1.13.3_1,1, py27-setuptools-38.5.1, py36-cython-0.26, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1, suitesparse-4.0.2_7
Also listed in: Python
- py27-pyfasta-0.5.2_1
- Fast, memory-efficient, pythonic access to fasta sequence files
Long description | Changes | Main Web Site
Maintained by: wen@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-numpy-1.13.3_1,1, py27-setuptools-38.5.1, python27-2.7.14_1, readline-7.0.3_1, suitesparse-4.0.2_7
Also listed in: Python
- py27-pymol-1.8.6.0
- OpenGL-based molecular visualization system
Long description | Changes | Main Web Site
Maintained by: yuri@FreeBSD.org
Requires: blt-2.5.3_3, damageproto-1.2.1, dri2proto-2.8, dri3proto-1.0, expat-2.2.5, fixesproto-5.0, fontconfig-2.12.1,1, freeglut-3.0.0_1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, glew-2.1.0, glproto-1.4.17, indexinfo-0.3.1, inputproto-2.3.2, jpeg-turbo-1.5.3, kbproto-1.0.7, libGLU-9.0.0_3, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXScrnSaver-1.2.2_3, libXau-1.0.8_3, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXi-1.7.9,1, libXmu-1.1.2_3,1, libXrandr-1.5.1, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libffi-3.2.1_2, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, msgpack-1.4.2_3, pciids-20171206, png-1.6.34, py27-Pmw-1.3.2_4, py27-setuptools-38.5.1, py27-tkinter-2.7.14_6, py36-msgpack-python-0.4.7, python27-2.7.14_1, python36-3.6.4, randrproto-1.5.0, readline-7.0.3_1, renderproto-0.11.1, scrnsaverproto-1.2.2, tcl86-8.6.8, tk86-8.6.8_2, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xproto-7.0.31
Also listed in: Science, Python
- py27-pysam-0.13
- Python module for reading, manipulating and writing genomic data sets
Long description | Changes | Main Web Site
Maintained by: yuri@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libffi-3.2.1_2, py27-setuptools-38.5.1, py36-cython-0.26, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1
Also listed in: Python
- py27-python-nexus-1.53
- Generic nexus file format reader for python
Long description | Changes | Main Web Site
Maintained by: wen@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, libffi-3.2.1_2, py27-setuptools-38.5.1, python27-2.7.14_1, readline-7.0.3_1
Also listed in: Python
- py36-biom-format-2.1.6_1
- Biological Observation Matrix (BIOM) Format Project
Long description | Changes | Main Web Site
Maintained by: jrm@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, hdf-szip-2.1_2, hdf5-1.10.1_1, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-click-6.7, py27-h5py-2.7.0, py27-numpy-1.13.3_1,1, py27-pytz-2017.3,1, py27-scipy-0.19.0_4, py27-setuptools-38.5.1, py27-six-1.11.0, py34-sqlite3-3.4.7_7, py36-bottleneck-1.2.1, py36-dateutil-2.6.1, py36-future-0.16.0, py36-numexpr-2.6.4, py36-pandas-0.22.0, python27-2.7.14_1, python34-3.4.7, python36-3.6.4, readline-7.0.3_1, sqlite3-3.21.0_1, suitesparse-4.0.2_7
Also listed in: Python
- py36-bx-python-0.8.1
- Python module for reading, manipulating and writing genomic data sets
Long description | Changes | Main Web Site
Maintained by: yuri@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, lzo2-2.10_1, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-numpy-1.13.3_1,1, py27-setuptools-38.5.1, py36-cython-0.26, py36-python-lzo-1.11, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1, suitesparse-4.0.2_7
Also listed in: Python
- py36-cutadapt-1.14
- Finds and removes adapter sequences, primers, poly-A tails, etc
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, libffi-3.2.1_2, py27-setuptools-38.5.1, py36-xopen-0.2.1, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1
Also listed in: Python
- py36-pyfasta-0.5.2_1
- Fast, memory-efficient, pythonic access to fasta sequence files
Long description | Changes | Main Web Site
Maintained by: wen@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-numpy-1.13.3_1,1, py27-setuptools-38.5.1, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1, suitesparse-4.0.2_7
Also listed in: Python
- py36-pysam-0.13
- Python module for reading, manipulating and writing genomic data sets
Long description | Changes | Main Web Site
Maintained by: yuri@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libffi-3.2.1_2, py27-setuptools-38.5.1, py36-cython-0.26, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1
Also listed in: Python
- py36-python-nexus-1.53
- Generic nexus file format reader for python
Long description | Changes | Main Web Site
Maintained by: wen@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, indexinfo-0.3.1, libffi-3.2.1_2, py27-setuptools-38.5.1, python27-2.7.14_1, python36-3.6.4, readline-7.0.3_1
Also listed in: Python
- pycogent-1.9
- Toolkit for statistical analysis of biological sequences
Long description | Changes | Main Web Site
Maintained by: python@FreeBSD.org
Requires: binutils-2.30_2,1, blas-3.5.0_3, ca_root_nss-3.35, cblas-1.0_7, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, lapack-3.5.0_3, libffi-3.2.1_2, mpc-1.0.3, mpfr-3.1.6, openblas-0.2.20_1,1, py27-Babel-2.5.1, py27-MarkupSafe-1.0, py27-asn1crypto-0.22.0, py27-cffi-1.11.2, py27-chardet-3.0.4, py27-cryptography-2.1.4, py27-enum34-1.1.6, py27-ipaddress-1.0.19, py27-numpy-1.13.3_1,1, py27-pycparser-2.10, py27-pysocks-1.6.8, py27-pytz-2017.3,1, py27-requests-2.18.1_1, py27-setuptools-38.5.1, py27-six-1.11.0, py27-snowballstemmer-1.2.0_1, py27-sphinxcontrib-websupport-1.0.1, py27-urllib3-1.22, py34-sqlite3-3.4.7_7, py36-Jinja2-2.10, py36-alabaster-0.7.6, py36-certifi-2018.1.18, py36-cython-0.26, py36-docutils-0.14_1, py36-idna-2.5, py36-imagesize-0.7.1, py36-openssl-17.5.0_1, py36-pygments-2.2.0, py36-pystemmer-1.3.0_1, py36-sphinx-1.6.5_1,1, py36-sphinx_rtd_theme-0.2.4, py36-sqlalchemy10-1.0.14, python27-2.7.14_1, python34-3.4.7, python36-3.6.4, readline-7.0.3_1, sqlite3-3.21.0_1, suitesparse-4.0.2_7
Also listed in: Python
- raster3d-3.0.2_10
- Set of tools for generating raster images of proteins and molecules
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: ImageMagick-6.9.9.28,1, avahi-app-0.6.31_6, binutils-2.30_2,1, ca_root_nss-3.35, cairo-1.14.8_1,2, cups-2.2.6, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fftw3-3.3.7, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gcc-ecj-4.5, gcc6-6.4.0_3, gdbm-1.13_1, gdk-pixbuf2-2.36.9, gettext-runtime-0.19.8.1_1, ghostscript9-agpl-base-9.16_5, ghostscript9-agpl-x11-9.16_2, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, gmp-6.1.2, gnome_subr-1.0, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, gsfonts-8.11_8, harfbuzz-1.7.5, indexinfo-0.3.1, inputproto-2.3.2, jasper-1.900.1_17, jbig2dec-0.14, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, lcms2-2.9, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXi-1.7.9,1, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libcroco-0.6.11, libdaemon-0.14_1, libdrm-2.4.89,1, libffi-3.2.1_2, libfontenc-1.1.3_1, libgd-2.2.4_1,1, libgsf-1.14.41, libiconv-1.14_11, libidn-1.33_1, libidn2-2.0.4, liblqr-1-0.4.2, libltdl-2.4.6, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libraw-0.18.5, librsvg2-2.40.17, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libwmf-0.2.8.4_15, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mpc-1.0.3, mpfr-3.1.6, nettle-3.4, openjpeg-2.3.0, p11-kit-0.23.9, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, python2-2_3, python27-2.7.14_1, readline-7.0.3_1, renderproto-0.11.1, shared-mime-info-1.8, svgalib-1.4.3_7, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, webp-0.6.1, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
Also listed in: Graphics
- recombine-1.41
- Program to fit population models across sites
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- ruby24-bio-1.5.1
- Integrated environment for Bioinformatics written in Ruby
Long description | Changes | Main Web Site
Maintained by: mauricio@arareko.net
Requires: indexinfo-0.3.1, libedit-3.1.20170329_2,1, libffi-3.2.1_2, libunwind-20170615, libyaml-0.1.6_2, ruby-2.4.3,1
Also listed in: Ruby
- rubygem-bio-1.5.1
- Integrated environment for Bioinformatics written in Ruby
Long description | Changes | Main Web Site
Maintained by: ruby@FreeBSD.org
Requires: indexinfo-0.3.1, libedit-3.1.20170329_2,1, libffi-3.2.1_2, libunwind-20170615, libyaml-0.1.6_2, ruby-2.4.3,1, ruby24-gems-2.7.5
Also listed in: Rubygems
- samtools-1.6
- Tools for manipulating next-generation sequencing data
Long description | Changes | Main Web Site
Maintained by: cartwright@asu.edu
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, ca_root_nss-3.35, curl-7.58.0_1, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, htslib-1.6, indexinfo-0.3.1, libnghttp2-1.30.0, m4-1.4.18,1, perl5-5.24.3
- seaview-4.6.3
- Multiple DNA/protein sequence alignment editor
Long description | Changes | Main Web Site
Maintained by: bofh@FreeBSD.org
Requires: damageproto-1.2.1, expat-2.2.5, fixesproto-5.0, fltk-1.3.4, fontconfig-2.12.1,1, freetype2-2.8_1, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, jpeg-turbo-1.5.3, kbproto-1.0.7, libGLU-9.0.0_3, libX11-1.6.5,1, libXau-1.0.8_3, libXcursor-1.1.15, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXinerama-1.1.3_3,1, libXrender-0.9.10, libXxf86vm-1.1.4_1, libdrm-2.4.89,1, libpciaccess-0.13.5, libpthread-stubs-0.4, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, pciids-20171206, png-1.6.34, renderproto-0.11.1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xineramaproto-1.2.1, xproto-7.0.31
- seqan-2.2.0
- C++ Sequence Analysis Template Library
Long description | Changes | Main Web Site
Maintained by: h2+fbsdports@fsfe.org
- seqan-apps-2.2.0_9
- Official Bioinformatic applications based on the SeqAn library
Long description | Changes | Main Web Site
Maintained by: h2+fbsdports@fsfe.org
Requires: binutils-2.30_2,1, boost-libs-1.66.0, ca_root_nss-3.35, cmake-3.10.2, curl-7.58.0_1, expat-2.2.5, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, icu-60.2_2,1, indexinfo-0.3.1, jsoncpp-1.8.1_2, libarchive-3.3.2,1, libffi-3.2.1_2, liblz4-1.8.1.2,1, libnghttp2-1.30.0, libuv-1.19.1, lzo2-2.10_1, mpc-1.0.3, mpfr-3.1.6, ninja-1.8.2,2, python27-2.7.14_1, readline-7.0.3_1, rhash-1.3.5
- seqan1-1.3.1_4
- C++ Sequence Analysis Library
Long description | Changes | Main Web Site
Maintained by: h2+fbsdports@fsfe.org
- seqio-1.2.2_1
- Set of C functions which can read/write biological sequence files
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- seqtools-4.44.1_2
- Tools for visualising sequence alignments
Long description | Changes | Main Web Site
Maintained by: pi@FreeBSD.org
Requires: atk-2.24.0, avahi-app-0.6.31_6, ca_root_nss-3.35, cairo-1.14.8_1,2, compositeproto-0.4.2, cups-2.2.6, curl-7.58.0_1, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dejavu-2.37, dri2proto-2.8, encodings-1.0.4_4,1, expat-2.2.5, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontconfig-2.12.1,1, freetype2-2.8_1, gdbm-1.13_1, gdk-pixbuf2-2.36.9, gettext-runtime-0.19.8.1_1, gettext-tools-0.19.8.1, glib-2.50.3_1,1, glproto-1.4.17, gmp-6.1.2, gnome_subr-1.0, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, gtk-update-icon-cache-2.24.31, gtk2-2.24.31, harfbuzz-1.7.5, hicolor-icon-theme-0.15, indexinfo-0.3.1, inputproto-2.3.2, jasper-1.900.1_17, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXcomposite-0.4.4_3,1, libXcursor-1.1.15, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXft-2.3.2_1, libXi-1.7.9,1, libXinerama-1.1.3_3,1, libXrandr-1.5.1, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, libdaemon-0.14_1, libdrm-2.4.89,1, libffi-3.2.1_2, libfontenc-1.1.3_1, libiconv-1.14_11, libidn2-2.0.4, libnghttp2-1.30.0, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libtasn1-4.13, libunistring-0.9.8, libunwind-20170615, libxcb-1.12_2, libxml2-2.9.7, libxshmfence-1.2_2, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, nettle-3.4, p11-kit-0.23.9, pango-1.40.6, pciids-20171206, pcre-8.40_1, perl5-5.24.3, pixman-0.34.0, pkgconf-1.4.1,1, png-1.6.34, python2-2_3, python27-2.7.14_1, randrproto-1.5.0, readline-7.0.3_1, renderproto-0.11.1, shared-mime-info-1.8, sqlite3-3.21.0_1, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, xcb-util-0.4.0_2,1, xcb-util-renderutil-0.3.9_1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xineramaproto-1.2.1, xorg-fonts-truetype-7.7_1, xproto-7.0.31
- sim4-2003.09.21_1
- Algorithm for aligning expressed DNA with genomic sequences
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
- slclust-2010.02.02
- Single-linkage clustering with Jaccard similarity
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
- ssaha-3.1c_5
- Very fast matching and alignment of DNA sequences
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6
- tRNAscan-SE-1.23_1
- Improved tool for transfer RNA detection
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: perl5-5.24.3
- t_coffee-9.03_6
- Multiple DNA or protein sequence alignment package
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: binutils-2.30_2,1, clustalw-2.1_1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6
- tinker-7.1.3_3
- General purpose molecular modelling package
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: binutils-2.30_2,1, gcc-ecj-4.5, gcc6-6.4.0_3, gettext-runtime-0.19.8.1_1, gmp-6.1.2, indexinfo-0.3.1, mpc-1.0.3, mpfr-3.1.6
- treepuzzle-5.2
- Maximum likelihood phylogeny reconstruction using quartets
Long description | Changes | Main Web Site
Maintained by: jan.lentfer@web.de
- trimmomatic-0.35
- Flexible read trimming tool for Illumina NGS data
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: alsa-lib-1.1.2, dejavu-2.37, expat-2.2.5, fixesproto-5.0, fontconfig-2.12.1,1, freetype2-2.8_1, giflib-5.1.4, inputproto-2.3.2, java-zoneinfo-2017.c, javavmwrapper-2.6, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXi-1.7.9,1, libXrender-0.9.10, libXt-1.1.5,1, libXtst-1.2.3, libfontenc-1.1.3_1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, mkfontdir-1.0.7, mkfontscale-1.1.2, openjdk8-8.162.12, recordproto-1.14.2, renderproto-0.11.1, xextproto-7.3.0, xproto-7.0.31
Also listed in: Java
- ugene-1.22.0_2
- Free, open-source, cross-platform bioinformatics toolkit
Long description | Changes | Main Web Site
Maintained by: h2+fbsdports@fsfe.org
Requires: avahi-app-0.6.31_6, bash-4.4.19, ca_root_nss-3.35, cairo-1.14.8_1,2, compositeproto-0.4.2, cups-2.2.6, damageproto-1.2.1, dbus-1.10.16_1, dbus-glib-0.108, dejavu-2.37, desktop-file-utils-0.23, dri2proto-2.8, dri3proto-1.0, encodings-1.0.4_4,1, expat-2.2.5, ffmpeg-3.4.1_5,1, fixesproto-5.0, font-bh-ttf-1.0.3_3, font-misc-ethiopic-1.0.3_3, font-misc-meltho-1.0.3_3, font-util-1.3.1, fontcacheproto-0.1.3, fontconfig-2.12.1,1, freetype2-2.8_1, gdbm-1.13_1, gettext-runtime-0.19.8.1_1, giflib-5.1.4, glib-2.50.3_1,1, glproto-1.4.17, gmp-6.1.2, gnome_subr-1.0, gnutls-3.5.17, gobject-introspection-1.50.0,1, graphite2-1.3.10, gstreamer1-1.12.3, gstreamer1-libav-1.12.3_1, gstreamer1-plugins-1.12.3, gstreamer1-plugins-a52dec-1.12.3, gstreamer1-plugins-bad-1.12.3_1, gstreamer1-plugins-core-1.12, gstreamer1-plugins-dts-1.12.3, gstreamer1-plugins-dvdread-1.12.3, gstreamer1-plugins-good-1.12.3, gstreamer1-plugins-mpg123-1.12.3, gstreamer1-plugins-ogg-1.12.3, gstreamer1-plugins-pango-1.12.3, gstreamer1-plugins-png-1.12.3, gstreamer1-plugins-resindvd-1.12.3, gstreamer1-plugins-theora-1.12.3, gstreamer1-plugins-ugly-1.12.3, gstreamer1-plugins-vorbis-1.12.3, harfbuzz-1.7.5, hicolor-icon-theme-0.15, hyphen-2.8.8, icu-60.2_2,1, indexinfo-0.3.1, inputproto-2.3.2, iso-codes-3.76, jasper-1.900.1_17, jbigkit-2.1_1, jpeg-turbo-1.5.3, kbproto-1.0.7, lcms-1.19_6,1, libGLU-9.0.0_3, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXcomposite-0.4.4_3,1, libXdamage-1.1.4_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXfontcache-1.0.5_3, libXft-2.3.2_1, libXi-1.7.9,1, libXmu-1.1.2_3,1, libXrender-0.9.10, libXt-1.1.5,1, libXxf86vm-1.1.4_1, liba52-0.7.4_3, libdaemon-0.14_1, libdca-0.0.5_1, libdrm-2.4.89,1, libdvdcss-1.4.1, libdvdnav-6.0.0, libdvdread-6.0.0, libffi-3.2.1_2, libfontenc-1.1.3_1, libgcrypt-1.8.2, libgpg-error-1.27, libiconv-1.14_11, libidn2-2.0.4, libltdl-2.4.6, libmng-1.0.10_3, libogg-1.3.3,4, libpaper-1.1.24.4, libpciaccess-0.13.5, libpthread-stubs-0.4, libtasn1-4.13, libtheora-1.1.1_7, libunistring-0.9.8, libunwind-20170615, libv4l-1.6.3_2, libva-2.0.0_1, libvdpau-1.1.1, libvorbis-1.3.5_1,3, libvpx-1.7.0, libx264-0.152.2854, libxcb-1.12_2, libxkbcommon-0.7.1_1, libxml2-2.9.7, libxshmfence-1.2_2, libxslt-1.1.29_1, mesa-libs-17.3.1, mkfontdir-1.0.7, mkfontscale-1.1.2, mpg123-1.25.8, nettle-3.4, opencv-core-2.4.13.1_1, opus-1.2.1, orc-0.4.25, p11-kit-0.23.9, pango-1.40.6, pciids-20171206, pcre-8.40_1, pcre2-10.21_1, perl5-5.24.3, pixman-0.34.0, png-1.6.34, python2-2_3, python27-2.7.14_1, qt5-buildtools-5.9.4, qt5-concurrent-5.9.4, qt5-core-5.9.4, qt5-dbus-5.9.4, qt5-gui-5.9.4_2, qt5-imageformats-5.9.4_1, qt5-linguisttools-5.9.4, qt5-location-5.9.4, qt5-network-5.9.4_1, qt5-opengl-5.9.4, qt5-printsupport-5.9.4, qt5-qmake-5.9.4, qt5-qml-5.9.4, qt5-quick-5.9.4, qt5-script-5.9.4, qt5-scripttools-5.9.4, qt5-sensors-5.9.4, qt5-sql-5.9.4, qt5-svg-5.9.4, qt5-testlib-5.9.4, qt5-webchannel-5.9.4, qt5-webkit-5.212.0.a2_5, qt5-widgets-5.9.4, qt5-xml-5.9.4, qt5-xmlpatterns-5.9.4, qtchooser-39, readline-7.0.3_1, renderproto-0.11.1, sqlite3-3.21.0_1, tiff-4.0.9_1, tpm-emulator-0.7.4_2, trousers-0.3.14_2, v4l_compat-1.6.3, webp-0.6.1, x265-2.3, xcb-util-0.4.0_2,1, xcb-util-image-0.4.0_1, xcb-util-keysyms-0.4.0_1, xcb-util-renderutil-0.3.9_1, xcb-util-wm-0.4.1_3, xdg-utils-1.1.1, xextproto-7.3.0, xf86vidmodeproto-2.3.1, xorg-fonts-truetype-7.7_1, xprop-1.2.2, xproto-7.0.31, xset-1.2.3_1, xvid-1.3.4,1
Also listed in: Science
- vcftools-0.1.15
- Tools for working with VCF genomics files
Long description | Changes | Main Web Site
Maintained by: jwb@FreeBSD.org
Requires: autoconf-2.69_1, autoconf-wrapper-20131203, automake-1.15.1, automake-wrapper-20131203, gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, m4-1.4.18,1, perl5-5.24.3, pkgconf-1.4.1,1
- velvet-1.2.10_2
- Sequence assembler for very short reads
Long description | Changes | Main Web Site
Maintained by: mzaki@m.u-tokyo.ac.jp
Requires: gettext-runtime-0.19.8.1_1, gmake-4.2.1_1, indexinfo-0.3.1, libffi-3.2.1_2, perl5-5.24.3, python27-2.7.14_1, readline-7.0.3_1
- wise-2.4.1_1
- Intelligent algorithms for DNA searches
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-runtime-0.19.8.1_1, glib-2.50.3_1,1, indexinfo-0.3.1, libffi-3.2.1_2, libiconv-1.14_11, pcre-8.40_1, perl5-5.24.3, pkgconf-1.4.1,1, python27-2.7.14_1, readline-7.0.3_1
- xmolwt-0.7_7
- Calculate atom weight and percent of each element for a given formula
Long description | Changes | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: fixesproto-5.0, gettext-runtime-0.19.8.1_1, glib12-1.2.10_15, gmake-4.2.1_1, gtk12-1.2.10_25, indexinfo-0.3.1, inputproto-2.3.2, kbproto-1.0.7, libICE-1.0.9_1,1, libSM-1.2.2_3,1, libX11-1.6.5,1, libXau-1.0.8_3, libXdmcp-1.1.2, libXext-1.3.3_1,1, libXfixes-5.0.3, libXi-1.7.9,1, libpthread-stubs-0.4, libxcb-1.12_2, libxml2-2.9.7, xextproto-7.3.0, xproto-7.0.31
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Index
