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FreeBSD Ports: Biology

Software related to Biology.

InsightToolkit-2.8.1
Insight Toolkit
Long description | Sources | Main Web Site
Maintained by: bacon@smithers.neuro.mcw.edu
Requires: cmake-2.4.7
Also listed in: Science

LBreeder-1.0_8
Allows you to display and breed L-system forms
Long description | Sources | Main Web Site
Maintained by: dyeske@gmail.com
Requires: atk-1.20.0, bitstream-vera-1.10_4, cairo-1.4.14, compositeproto-0.4, damageproto-1.1.0_2, encodings-1.0.2,1, expat-2.0.0_1, fixesproto-4.0, font-bh-ttf-1.0.0, font-misc-ethiopic-1.0.0, font-misc-meltho-1.0.0_1, font-util-1.0.1, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, glib-2.14.5, gmake-3.81_2, gtk-2.12.5, hicolor-icon-theme-0.10_2, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libglut-7.0.1_1, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, mkfontdir-1.0.3, mkfontscale-1.0.3, pango-1.18.4, pcre-7.4, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, shared-mime-info-0.23, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, wxgtk2-2.4.2_15, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-fonts-truetype-7.3, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

adun-0.6_2
Molecular Simulator for GNUstep
Long description | Sources | Main Web Site
Maintained by: gurkan@linuks.mine.nu
Requires: aspell-0.60.5_2, compositeproto-0.4, cups-base-1.3.5_2, damageproto-1.1.0_2, expat-2.0.0_1, ffcall-1.10_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gcc-4.2.3_20080123, gettext-0.16.1_3, gmake-3.81_2, gnustep-back-0.11.0_1, gnustep-base-1.13.1_1, gnustep-gui-0.11.0_2, gnustep-make-2.0.4, gnutls-2.0.2_1, gsl-1.10, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libaudiofile-0.2.6, libdmx-1.0.2, libfontenc-1.0.4, libgcrypt-1.2.4_1, libgmp-4.2.2, libgpg-error-1.5, libiconv-1.11_1, liboldX-1.0.1, libungif-4.1.4_5, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, libxslt-1.1.22, mpfr-2.3.0, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, portaudio-19.b1175, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Gnustep

afni-2007.06.15.1339
Advanced Functional Neuro Imaging
Long description | Sources | Main Web Site
Maintained by: bacon@smithers.neuro.mcw.edu
Requires: compositeproto-0.4, damageproto-1.1.0_2, endian-1.0, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, gmake-3.81_2, inputproto-1.4.2.1, jbigkit-1.6, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libGLw-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, mpeg_encode-1.5b, netpbm-10.26.49, open-motif-2.2.3_5, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, whirlgif-3.04, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Science, Graphics

ariadne-1.3
Programs to compare protein sequences and profiles
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

artemis-9
A DNA sequence viewer and annotation tool
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: diablo-jdk-1.5.0.07.01_9, inputproto-1.4.2.1, javavmwrapper-2.3, kbproto-1.0.3, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXau-1.0.3_2, libXdmcp-1.0.2, libXext-1.0.3,1, libXi-1.1.3,1, libXp-1.0.0,1, libXt-1.0.5, libXtst-1.0.3, pkg-config-0.22_1, printproto-1.0.3, recordproto-1.13.2, xextproto-7.0.2, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Java

avida-2.4.3
Avida is an auto-adaptive genetic system designed for ALife research
Long description | Sources | Main Web Site
Maintained by: sf@slappy.org
Requires: cmake-2.4.7

babel-1.6_3
Converts among various molecular file formats
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Also listed in: Converters

belvu-2.29
A viewer for multiple sequence alignments
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: linux_base-fc-4_10

biococoa-1.6.0_1
Bioinformatics framework
Long description | Sources | Main Web Site
Maintained by: dinoex@FreeBSD.org
Requires: aspell-0.60.5_2, compositeproto-0.4, cups-base-1.3.5_2, damageproto-1.1.0_2, expat-2.0.0_1, ffcall-1.10_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gcc-4.2.3_20080123, gettext-0.16.1_3, gmake-3.81_2, gnustep-back-0.11.0_1, gnustep-base-1.13.1_1, gnustep-gui-0.11.0_2, gnustep-make-2.0.4, gnutls-2.0.2_1, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libaudiofile-0.2.6, libdmx-1.0.2, libfontenc-1.0.4, libgcrypt-1.2.4_1, libgmp-4.2.2, libgpg-error-1.5, libiconv-1.11_1, liboldX-1.0.1, libungif-4.1.4_5, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, libxslt-1.1.22, mpfr-2.3.0, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, portaudio-19.b1175, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Gnustep

biojava-1.5.b2_1,1
Open-source java tools for processing biological data
Long description | Sources | Main Web Site
Maintained by: nemoliu@FreeBSD.org
Requires: apache-ant-1.7.0_1, diablo-jdk-1.5.0.07.01_9, hsqldb-1.8.0.9, inputproto-1.4.2.1, jakarta-commons-cli-1.0_1,1, jakarta-commons-collections-3.2_1, jakarta-commons-dbcp-1.2.1_1, jakarta-commons-pool-1.3_1, jakarta-regexp-1.5_1, javavmwrapper-2.3, junit-3.8.2_1, kbproto-1.0.3, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXau-1.0.3_2, libXdmcp-1.0.2, libXext-1.0.3,1, libXi-1.1.3,1, libXp-1.0.0,1, libXt-1.0.5, libXtst-1.0.3, pkg-config-0.22_1, printproto-1.0.3, recordproto-1.13.2, xerces-j-2.9.0_1, xextproto-7.0.2, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Java

blat-33
A fast tool for local sequence similarity searches
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

boinc-simap-5.10.5.09_1
Similarity Matrix of Proteins project for BOINC
Long description | Sources | Main Web Site
Maintained by: pav@FreeBSD.org
Requires: ORBit2-2.14.11, atk-1.20.0, bitstream-vera-1.10_4, boinc-client-5.10.32, cairo-1.4.14, compositeproto-0.4, curl-7.16.3, damageproto-1.1.0_2, encodings-1.0.2,1, expat-2.0.0_1, fixesproto-4.0, font-bh-ttf-1.0.0, font-misc-ethiopic-1.0.0, font-misc-meltho-1.0.0_1, font-util-1.0.1, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gconf2-2.20.1, gettext-0.16.1_3, glib-2.14.5, gnomehier-2.3_10, gstreamer-0.10.15, gstreamer-plugins-0.10.15,3, gtk-2.12.5, hicolor-icon-theme-0.10_2, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libIDL-0.8.9_1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libglut-7.0.1_1, libiconv-1.11_1, libmspack-0.0.20040308_3, liboil-0.3.12, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, linc-1.0.3_6, mkfontdir-1.0.3, mkfontscale-1.0.3, pango-1.18.4, pcre-7.4, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, popt-1.7_4, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, shared-mime-info-0.23, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, wxgtk2-2.8.5, wxgtk2-common-2.8.5, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-fonts-truetype-7.3, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

chemeq-1.50_1
Outputs LaTeX code for chemical reaction
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: bison-2.3_3,1, gettext-0.16.1_3, libiconv-1.11_1, m4-1.4.9,1
Also listed in: Textproc

clustalw-2.0
CLUSTAL W Multiple Sequence Alignment Program
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

crimap-2.4
Creation of multilocus linkage maps
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

cycle-0.3.1_2
A calendar program for women
Long description | Sources | Main Web Site
Maintained by: danfe@FreeBSD.org
Requires: atk-1.20.0, bitstream-vera-1.10_4, cairo-1.4.14, compositeproto-0.4, damageproto-1.1.0_2, encodings-1.0.2,1, expat-2.0.0_1, fixesproto-4.0, font-bh-ttf-1.0.0, font-misc-ethiopic-1.0.0, font-misc-meltho-1.0.0_1, font-util-1.0.1, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, glib-2.14.5, gtk-2.12.5, hicolor-icon-theme-0.10_2, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libglut-7.0.1_1, libiconv-1.11_1, libmspack-0.0.20040308_3, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, mkfontdir-1.0.3, mkfontscale-1.0.3, pango-1.18.4, pcre-7.4, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, py25-imaging-1.1.6_2, py25-numeric-24.2, py25-opengl-2.0.1.07_4, py25-tkinter-2.5.1_2, py25-wxPython-2.6.3.3_1, py25-wxPython-common-2.6.3.3_1, python25-2.5.1_1, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, shared-mime-info-0.23, tcl-8.4.17,1, tiff-3.8.2_1, tk-8.4.17,2, trapproto-3.4.3, videoproto-2.2.2, wxgtk2-2.6.3_5, wxgtk2-common-2.6.3_3, wxgtk2-contrib-2.6.3_2, wxgtk2-contrib-common-2.6.3_2, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-fonts-truetype-7.3, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Deskutils, Python

distribfold-0.1.20040613
distributedfolding.org distributed protein folding project
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compat4x-i386-5.3_9, localedata-5.4
Also listed in: Net

dna-qc-1993.07.26
A quality control algorithm for DNA sequencing projects
Long description | Sources
Maintained by: ports@FreeBSD.org

dotter-20021204
A viewer for multiple sequence alignments
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: linux_base-fc-4_10

embassy-3.0.0_1
A collection of contributed EMBOSS applications
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: compositeproto-0.4, damageproto-1.1.0_2, emboss-3.0.0_1, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gd-2.0.35,1, gettext-0.16.1_3, gmake-3.81_2, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, open-motif-2.2.3_5, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

emboss-3.0.0_1
A collection of open source tools for genetic sequence analysis
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: clustalw-2.0, compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gd-2.0.35,1, gettext-0.16.1_3, gmake-3.81_2, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, libiconv-1.11_1, liboldX-1.0.1, libtool-1.5.24, libxkbfile-1.0.4, libxkbui-1.0.2, open-motif-2.2.3_5, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, primer3-1.0.1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

fasta-21.u1.d1
A collection of programs for searching DNA and protein databases
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

fasta3-34.26.2
A collection of programs for searching DNA and protein databases
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar

fastdnaml-1.2.2_1
Faster DNAML, makes phylogenetic trees using maximum likelihood
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

finchtv-1.3.1
A chromatogram trace viewer
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: linux_base-fc-4_10

fluctuate-1.40
A program to fit population models
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

garlic-1.5_1
Molecular viewer, editor and visualization program
Long description | Sources | Main Web Site
Maintained by: maho@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, gmake-3.81_2, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

genpak-0.26_4
A set of small utilities to manipulate DNA sequences
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: freetype2-2.3.5, gd-2.0.35,1, gettext-0.16.1_3, gmake-3.81_2, jpeg-6b_4, libiconv-1.11_1, pkg-config-0.22_1, png-1.2.23_1

gff2ps-0.98d_1
Converts gff-formated genomic data-sets to PostScript
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: bash-3.2.33, gawk-3.1.5_1, gettext-0.16.1_3, libiconv-1.11_1

gmap-2006.04.21
A Genomic Mapping and Alignment Program for mRNA and EST Sequences
Long description | Sources | Main Web Site
Maintained by: rpz@cse.wustl.edu
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

gperiodic-2.0.10
Displays a periodic table of the elements
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: atk-1.20.0, bitstream-vera-1.10_4, cairo-1.4.14, compositeproto-0.4, damageproto-1.1.0_2, encodings-1.0.2,1, expat-2.0.0_1, fixesproto-4.0, font-bh-ttf-1.0.0, font-misc-ethiopic-1.0.0, font-misc-meltho-1.0.0_1, font-util-1.0.1, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, glib-2.14.5, gtk-2.12.5, hicolor-icon-theme-0.10_2, inputproto-1.4.2.1, intltool-0.36.3, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, mkfontdir-1.0.3, mkfontscale-1.0.3, p5-XML-Parser-2.36, pango-1.18.4, pcre-7.4, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, shared-mime-info-0.23, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-fonts-truetype-7.3, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

grappa-2.0
Genome Rearrangements Analysis and Phylogeny Software
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

hmmer-2.3.2
Profile hidden Markov models for biological sequence analysis
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: perl-5.8.8_1

jalview-2.07_1
A viewer and editor for multiple sequence alignments
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: apache-ant-1.7.0_1, diablo-jdk-1.5.0.07.01_9, inputproto-1.4.2.1, javavmwrapper-2.3, kbproto-1.0.3, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXau-1.0.3_2, libXdmcp-1.0.2, libXext-1.0.3,1, libXi-1.1.3,1, libXp-1.0.0,1, libXt-1.0.5, libXtst-1.0.3, pkg-config-0.22_1, printproto-1.0.3, recordproto-1.13.2, xextproto-7.0.2, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Java

kinemage-5.79_1
A molecular visualization program with special functions
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, open-motif-2.2.3_5, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

lagan-1.2
Efficient tools for large-scale multiple alignments of genomic DNA
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: perl-5.8.8_1

lamarc-2.1.2b,1
A package of programs for computing population parameters
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

libgenome-0.5.2_1
Toolkit for developing bioinformatic related software in C++
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: libtool-1.5.24

linux-foldingathome-5.04
Distributed client for Protein Folding
Long description | Sources | Main Web Site
Maintained by: onatan@gmail.com
Requires: linux_base-fc-4_10

lsysexp-0.67_6
A GTK based program for viewing and creating L-system fractals
Long description | Sources | Main Web Site
Maintained by: dyeske@gmail.com
Requires: atk-1.20.0, bitstream-vera-1.10_4, cairo-1.4.14, compositeproto-0.4, damageproto-1.1.0_2, encodings-1.0.2,1, expat-2.0.0_1, fixesproto-4.0, font-bh-ttf-1.0.0, font-misc-ethiopic-1.0.0, font-misc-meltho-1.0.0_1, font-util-1.0.1, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, glib-2.14.5, gtk-2.12.5, hicolor-icon-theme-0.10_2, inputproto-1.4.2.1, intltool-0.36.3, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, mkfontdir-1.0.3, mkfontscale-1.0.3, p5-XML-Parser-2.36, pango-1.18.4, pcre-7.4, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, shared-mime-info-0.23, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-fonts-truetype-7.3, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

mafft-5.743
Multiple sequence alignments based on fast Fourier transform
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: fasta3-34.26.2

migrate-2.4.2
A program to estimate population sizes and migration rates
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

minc-1.4_2
Medical Imaging NetCDF
Long description | Sources | Main Web Site
Maintained by: bacon@smithers.neuro.mcw.edu
Requires: libtool-1.5.24, netcdf-3.6.2
Also listed in: Science

minc-2.0.09_1
Medical Imaging NetCDF
Long description | Sources | Main Web Site
Maintained by: bacon@smithers.neuro.mcw.edu
Requires: hdf5-1.6.6, libtool-1.5.24, netcdf-3.6.2
Also listed in: Science

molden-4.5_1
Display molecular orbitals and electron densities in 2D and 3D
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gcc-4.2.3_20080123, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libglut-7.0.1_1, libgmp-4.2.2, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, mpfr-2.3.0, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

mopac-7.1.10,1
Semi-empirical (MNDO, etc.) molecular orbital calculation
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: f2c-20060810_1, gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

mrbayes-3.1.2
Bayesian inference of phylogeny
Long description | Sources | Main Web Site
Maintained by: mzaki@biol.s.u-tokyo.ac.jp
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1, readline-5.2_1

mummer-3.20
A modular system for rapid whole genome alignment
Long description | Sources | Main Web Site
Maintained by: Anthony.Maher@uts.edu.au
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

nab-5.1.2_1
A language for macromolecules
Long description | Sources | Main Web Site
Maintained by: mldodson@houston.rr.com
Requires: ucpp-1.3

ncbi-toolkit-2006.05.07_1
NCBI development toolkit, including BLAST 2 and GenBank/Entrez support
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, open-motif-2.2.3_5, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

ortep3-1.0.3_3
The Oak Ridge Thermal Ellipsoid Plot Program for Crystal Structure
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gcc-4.2.3_20080123, libgmp-4.2.2, libiconv-1.11_1, mpfr-2.3.0

p5-AcePerl-1.91
Perl5 interface to the ACEDB genome database system
Long description | Sources | Main Web Site
Maintained by: pgollucci@p6m7g8.com
Requires: p5-Cache-Cache-1.05, p5-Digest-1.15, p5-Digest-MD5-2.36, p5-Digest-SHA1-2.11, p5-Error-0.17009, p5-IPC-ShareLite-0.09, p5-MIME-Base64-3.07, p5-PathTools-3.2700, p5-Scalar-List-Utils-1.19,1, p5-Storable-2.18, perl-5.8.8_1
Also listed in: Databases, Perl5

p5-Bio-ASN1-EntrezGene-1.091
Regular expression-based Perl Parser for NCBI Entrez Gene
Long description | Sources | Main Web Site
Maintained by: mauricio@arareko.net
Requires: perl-5.8.8_1
Also listed in: Perl5

p5-Bio-Das-1.06
Client-side library for Distributed Genome Annotation System
Long description | Sources | Main Web Site
Maintained by: perl@FreeBSD.org
Requires: expat-2.0.0_1, freetype2-2.3.5, gd-2.0.35,1, jpeg-6b_4, libiconv-1.11_1, mysql-client-5.0.51, p5-AcePerl-1.91, p5-Authen-SASL-2.10_1, p5-Cache-Cache-1.05, p5-Class-ISA-0.33, p5-Compress-Raw-Zlib-2.008, p5-Compress-Zlib-2.008, p5-Convert-BinHex-1.119, p5-Crypt-SSLeay-0.57, p5-DBD-mysql-4.005, p5-DBI-1.60.1, p5-Digest-1.15, p5-Digest-HMAC-1.01, p5-Digest-MD5-2.36, p5-Digest-SHA1-2.11, p5-Email-Abstract-2.134, p5-Email-Date-1.10.3, p5-Email-Date-Format-1.002, p5-Email-Simple-2.00.3, p5-Error-0.17009, p5-File-Temp-0.20, p5-GD-2.35_1, p5-GSSAPI-0.24, p5-HTML-Parser-3.56, p5-HTML-Tagset-3.10, p5-HTML-Tree-3.23, p5-IO-Compress-Base-2.008, p5-IO-Compress-Zlib-2.008, p5-IO-Socket-SSL-1.12, p5-IO-String-1.08, p5-IO-stringy-2.110, p5-IPC-ShareLite-0.09, p5-MIME-Base64-3.07, p5-MIME-Lite-3.02.1, p5-MIME-Tools-5.425,2, p5-MIME-Types-1.23, p5-Mail-Tools-1.77, p5-Module-Pluggable-3.6, p5-Net-1.22,1, p5-Net-SSLeay-1.30_1, p5-Parse-RecDescent-1.95.1, p5-PathTools-3.2700, p5-SOAP-Lite-0.69, p5-Scalar-List-Utils-1.19,1, p5-Storable-2.18, p5-Test-Harness-3.07, p5-Test-Simple-0.74, p5-Text-Balanced-2.0.0_1, p5-Text-Iconv-1.7, p5-Text-Shellwords-1.08, p5-Tie-IxHash-1.21, p5-Time-Local-1.17, p5-Time-Piece-1.12, p5-TimeDate-1.16,1, p5-URI-1.35, p5-XML-DOM-1.44, p5-XML-Filter-BufferText-1.01, p5-XML-Handler-YAWriter-0.23, p5-XML-NamespaceSupport-1.09_1, p5-XML-Node-0.11, p5-XML-Parser-2.36, p5-XML-RegExp-0.03, p5-XML-SAX-0.16, p5-XML-SAX-Expat-0.39, p5-XML-SAX-Writer-0.50, p5-XML-Simple-2.18, p5-XML-Twig-3.32, p5-XML-Writer-0.603, p5-XML-XPath-1.13, p5-bioperl-1.4_1, p5-libwww-5.805, p5-libxml-0.08, p5-version-0.74, perl-5.8.8_1, pkg-config-0.22_1, png-1.2.23_1

p5-Bio-Phylo-0.16
Phylogenetic analysis using perl
Long description | Sources | Main Web Site
Maintained by: aaron@FreeBSD.org
Requires: expat-2.0.0_1, freetype2-2.3.5, gd-2.0.35,1, jpeg-6b_4, libiconv-1.11_1, mysql-client-5.0.51, p5-AcePerl-1.91, p5-Archive-Tar-1.38, p5-Authen-SASL-2.10_1, p5-Cache-Cache-1.05, p5-Class-Data-Inheritable-0.06, p5-Class-ISA-0.33, p5-Compress-Raw-Zlib-2.008, p5-Compress-Zlib-2.008, p5-Convert-BinHex-1.119, p5-Crypt-SSLeay-0.57, p5-DBD-mysql-4.005, p5-DBI-1.60.1, p5-Devel-StackTrace-1.15, p5-Digest-1.15, p5-Digest-HMAC-1.01, p5-Digest-MD5-2.36, p5-Digest-SHA1-2.11, p5-Email-Abstract-2.134, p5-Email-Date-1.10.3, p5-Email-Date-Format-1.002, p5-Email-Simple-2.00.3, p5-Error-0.17009, p5-Exception-Class-1.23_1, p5-ExtUtils-CBuilder-0.21, p5-ExtUtils-ParseXS-2.18, p5-File-Temp-0.20, p5-GD-2.35_1, p5-GSSAPI-0.24, p5-HTML-Parser-3.56, p5-HTML-Tagset-3.10, p5-HTML-Tree-3.23, p5-IO-Compress-Base-2.008, p5-IO-Compress-Zlib-2.008, p5-IO-Socket-SSL-1.12, p5-IO-String-1.08, p5-IO-Zlib-1.07, p5-IO-stringy-2.110, p5-IPC-ShareLite-0.09, p5-MIME-Base64-3.07, p5-MIME-Lite-3.02.1, p5-MIME-Tools-5.425,2, p5-MIME-Types-1.23, p5-Mail-Tools-1.77, p5-Math-Random-0.69, p5-Module-Build-0.28.08, p5-Module-Pluggable-3.6, p5-Net-1.22,1, p5-Net-SSLeay-1.30_1, p5-Parse-RecDescent-1.95.1, p5-PathTools-3.2700, p5-SOAP-Lite-0.69, p5-SVG-2.33, p5-Scalar-List-Utils-1.19,1, p5-Spiffy-0.30, p5-Storable-2.18, p5-Test-Base-0.54, p5-Test-Harness-3.07, p5-Test-Simple-0.74, p5-Text-Balanced-2.0.0_1, p5-Text-Iconv-1.7, p5-Text-Shellwords-1.08, p5-Tie-IxHash-1.21, p5-Time-Local-1.17, p5-Time-Piece-1.12, p5-TimeDate-1.16,1, p5-URI-1.35, p5-XML-DOM-1.44, p5-XML-Filter-BufferText-1.01, p5-XML-Handler-YAWriter-0.23, p5-XML-NamespaceSupport-1.09_1, p5-XML-Node-0.11, p5-XML-Parser-2.36, p5-XML-RegExp-0.03, p5-XML-SAX-0.16, p5-XML-SAX-Expat-0.39, p5-XML-SAX-Writer-0.50, p5-XML-Simple-2.18, p5-XML-Twig-3.32, p5-XML-Writer-0.603, p5-XML-XPath-1.13, p5-YAML-0.66, p5-bioperl-1.4_1, p5-libwww-5.805, p5-libxml-0.08, p5-version-0.74, perl-5.8.8_1, pkg-config-0.22_1, png-1.2.23_1
Also listed in: Perl5

p5-bioperl-1.4_1
A collection of Perl modules for bioinformatics
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: expat-2.0.0_1, freetype2-2.3.5, gd-2.0.35,1, jpeg-6b_4, libiconv-1.11_1, mysql-client-5.0.51, p5-AcePerl-1.91, p5-Authen-SASL-2.10_1, p5-Cache-Cache-1.05, p5-Class-ISA-0.33, p5-Compress-Raw-Zlib-2.008, p5-Compress-Zlib-2.008, p5-Convert-BinHex-1.119, p5-Crypt-SSLeay-0.57, p5-DBD-mysql-4.005, p5-DBI-1.60.1, p5-Digest-1.15, p5-Digest-HMAC-1.01, p5-Digest-MD5-2.36, p5-Digest-SHA1-2.11, p5-Email-Abstract-2.134, p5-Email-Date-1.10.3, p5-Email-Date-Format-1.002, p5-Email-Simple-2.00.3, p5-Error-0.17009, p5-File-Temp-0.20, p5-GD-2.35_1, p5-GSSAPI-0.24, p5-HTML-Parser-3.56, p5-HTML-Tagset-3.10, p5-HTML-Tree-3.23, p5-IO-Compress-Base-2.008, p5-IO-Compress-Zlib-2.008, p5-IO-Socket-SSL-1.12, p5-IO-String-1.08, p5-IO-stringy-2.110, p5-IPC-ShareLite-0.09, p5-MIME-Base64-3.07, p5-MIME-Lite-3.02.1, p5-MIME-Tools-5.425,2, p5-MIME-Types-1.23, p5-Mail-Tools-1.77, p5-Module-Pluggable-3.6, p5-Net-1.22,1, p5-Net-SSLeay-1.30_1, p5-Parse-RecDescent-1.95.1, p5-PathTools-3.2700, p5-SOAP-Lite-0.69, p5-Scalar-List-Utils-1.19,1, p5-Storable-2.18, p5-Test-Harness-3.07, p5-Test-Simple-0.74, p5-Text-Balanced-2.0.0_1, p5-Text-Iconv-1.7, p5-Text-Shellwords-1.08, p5-Tie-IxHash-1.21, p5-Time-Local-1.17, p5-Time-Piece-1.12, p5-TimeDate-1.16,1, p5-URI-1.35, p5-XML-DOM-1.44, p5-XML-Filter-BufferText-1.01, p5-XML-Handler-YAWriter-0.23, p5-XML-NamespaceSupport-1.09_1, p5-XML-Node-0.11, p5-XML-Parser-2.36, p5-XML-RegExp-0.03, p5-XML-SAX-0.16, p5-XML-SAX-Expat-0.39, p5-XML-SAX-Writer-0.50, p5-XML-Simple-2.18, p5-XML-Twig-3.32, p5-XML-Writer-0.603, p5-XML-XPath-1.13, p5-libwww-5.805, p5-libxml-0.08, p5-version-0.74, perl-5.8.8_1, pkg-config-0.22_1, png-1.2.23_1
Also listed in: Perl5

p5-bioperl-1.5.1_1
A collection of Perl modules for bioinformatics (developer release)
Long description | Sources | Main Web Site
Maintained by: mauricio@arareko.net
Requires: expat-2.0.0_1, freetype2-2.3.5, gd-2.0.35,1, jpeg-6b_4, libiconv-1.11_1, mysql-client-5.0.51, p5-AcePerl-1.91, p5-Authen-SASL-2.10_1, p5-Bio-ASN1-EntrezGene-1.091, p5-Cache-Cache-1.05, p5-Class-AutoClass-1.01, p5-Class-ISA-0.33, p5-Clone-0.28, p5-Compress-Raw-Zlib-2.008, p5-Compress-Zlib-2.008, p5-Convert-BinHex-1.119, p5-Crypt-SSLeay-0.57, p5-DBD-mysql-4.005, p5-DBI-1.60.1, p5-Data-Stag-0.10, p5-Digest-1.15, p5-Digest-HMAC-1.01, p5-Digest-MD5-2.36, p5-Digest-SHA1-2.11, p5-Email-Abstract-2.134, p5-Email-Date-1.10.3, p5-Email-Date-Format-1.002, p5-Email-Simple-2.00.3, p5-Error-0.17009, p5-File-Temp-0.20, p5-GD-2.35_1, p5-GD-SVG-0.28_1, p5-GSSAPI-0.24, p5-Graph-0.84,1, p5-HTML-Parser-3.56, p5-HTML-Tagset-3.10, p5-HTML-Tree-3.23, p5-Heap-0.80, p5-IO-Compress-Base-2.008, p5-IO-Compress-Zlib-2.008, p5-IO-Socket-SSL-1.12, p5-IO-String-1.08, p5-IO-stringy-2.110, p5-IPC-ShareLite-0.09, p5-MIME-Base64-3.07, p5-MIME-Lite-3.02.1, p5-MIME-Tools-5.425,2, p5-MIME-Types-1.23, p5-Mail-Tools-1.77, p5-Module-Pluggable-3.6, p5-Net-1.22,1, p5-Net-SSLeay-1.30_1, p5-PathTools-3.2700, p5-SOAP-Lite-0.69, p5-SVG-2.33, p5-SVG-Graph-0.01, p5-Scalar-List-Utils-1.19,1, p5-Storable-2.18, p5-Text-Iconv-1.7, p5-Text-Shellwords-1.08, p5-Tie-IxHash-1.21, p5-Time-Local-1.17, p5-Time-Piece-1.12, p5-TimeDate-1.16,1, p5-URI-1.35, p5-XML-DOM-1.44, p5-XML-DOM-XPath-0.13_1, p5-XML-Filter-BufferText-1.01, p5-XML-Handler-YAWriter-0.23, p5-XML-NamespaceSupport-1.09_1, p5-XML-Parser-2.36, p5-XML-RegExp-0.03, p5-XML-SAX-0.16, p5-XML-SAX-Expat-0.39, p5-XML-SAX-Writer-0.50, p5-XML-Simple-2.18, p5-XML-Twig-3.32, p5-XML-Writer-0.603, p5-XML-XPath-1.13, p5-XML-XPathEngine-0.08, p5-libwww-5.805, p5-libxml-0.08, perl-5.8.8_1, pkg-config-0.22_1, png-1.2.23_1
Also listed in: Perl5

p5-bioperl-run-1.4_1
Wrapper modules for common bioinformatics tools
Long description | Sources | Main Web Site
Maintained by: mauricio@arareko.net
Requires: expat-2.0.0_1, freetype2-2.3.5, gd-2.0.35,1, jpeg-6b_4, libiconv-1.11_1, mysql-client-5.0.51, p5-AcePerl-1.91, p5-Algorithm-Diff-1.1902, p5-Authen-SASL-2.10_1, p5-Cache-Cache-1.05, p5-Class-ISA-0.33, p5-Compress-Raw-Zlib-2.008, p5-Compress-Zlib-2.008, p5-Convert-BinHex-1.119, p5-Crypt-SSLeay-0.57, p5-DBD-mysql-4.005, p5-DBI-1.60.1, p5-Digest-1.15, p5-Digest-HMAC-1.01, p5-Digest-MD5-2.36, p5-Digest-SHA1-2.11, p5-Email-Abstract-2.134, p5-Email-Date-1.10.3, p5-Email-Date-Format-1.002, p5-Email-Simple-2.00.3, p5-Error-0.17009, p5-File-Temp-0.20, p5-GD-2.35_1, p5-GSSAPI-0.24, p5-HTML-Parser-3.56, p5-HTML-Tagset-3.10, p5-HTML-Tree-3.23, p5-IO-Compress-Base-2.008, p5-IO-Compress-Zlib-2.008, p5-IO-Socket-SSL-1.12, p5-IO-String-1.08, p5-IO-stringy-2.110, p5-IPC-ShareLite-0.09, p5-MIME-Base64-3.07, p5-MIME-Lite-3.02.1, p5-MIME-Tools-5.425,2, p5-MIME-Types-1.23, p5-Mail-Tools-1.77, p5-Module-Pluggable-3.6, p5-Net-1.22,1, p5-Net-SSLeay-1.30_1, p5-Parse-RecDescent-1.95.1, p5-PathTools-3.2700, p5-SOAP-Lite-0.69, p5-Scalar-List-Utils-1.19,1, p5-Storable-2.18, p5-Test-Harness-3.07, p5-Test-Simple-0.74, p5-Text-Balanced-2.0.0_1, p5-Text-Iconv-1.7, p5-Text-Shellwords-1.08, p5-Tie-IxHash-1.21, p5-Time-Local-1.17, p5-Time-Piece-1.12, p5-TimeDate-1.16,1, p5-URI-1.35, p5-XML-DOM-1.44, p5-XML-Filter-BufferText-1.01, p5-XML-Handler-YAWriter-0.23, p5-XML-NamespaceSupport-1.09_1, p5-XML-Node-0.11, p5-XML-Parser-2.36, p5-XML-RegExp-0.03, p5-XML-SAX-0.16, p5-XML-SAX-Expat-0.39, p5-XML-SAX-Writer-0.50, p5-XML-Simple-2.18, p5-XML-Twig-3.32, p5-XML-Writer-0.603, p5-XML-XPath-1.13, p5-bioperl-1.4_1, p5-libwww-5.805, p5-libxml-0.08, p5-version-0.74, perl-5.8.8_1, pkg-config-0.22_1, png-1.2.23_1
Also listed in: Perl5

p5-bioperl-run-1.5.1_1
Wrapper modules for common bioinformatics tools (developer release)
Long description | Sources | Main Web Site
Maintained by: mauricio@arareko.net
Requires: expat-2.0.0_1, freetype2-2.3.5, gd-2.0.35,1, jpeg-6b_4, libiconv-1.11_1, mysql-client-5.0.51, p5-AcePerl-1.91, p5-Algorithm-Diff-1.1902, p5-Authen-SASL-2.10_1, p5-Bio-ASN1-EntrezGene-1.091, p5-Cache-Cache-1.05, p5-Class-AutoClass-1.01, p5-Class-ISA-0.33, p5-Clone-0.28, p5-Compress-Raw-Zlib-2.008, p5-Compress-Zlib-2.008, p5-Convert-BinHex-1.119, p5-Crypt-SSLeay-0.57, p5-DBD-mysql-4.005, p5-DBI-1.60.1, p5-Data-Stag-0.10, p5-Digest-1.15, p5-Digest-HMAC-1.01, p5-Digest-MD5-2.36, p5-Digest-SHA1-2.11, p5-Email-Abstract-2.134, p5-Email-Date-1.10.3, p5-Email-Date-Format-1.002, p5-Email-Simple-2.00.3, p5-Error-0.17009, p5-File-Temp-0.20, p5-GD-2.35_1, p5-GD-SVG-0.28_1, p5-GSSAPI-0.24, p5-Graph-0.84,1, p5-HTML-Parser-3.56, p5-HTML-Tagset-3.10, p5-HTML-Tree-3.23, p5-Heap-0.80, p5-IO-Compress-Base-2.008, p5-IO-Compress-Zlib-2.008, p5-IO-Socket-SSL-1.12, p5-IO-String-1.08, p5-IO-stringy-2.110, p5-IPC-ShareLite-0.09, p5-MIME-Base64-3.07, p5-MIME-Lite-3.02.1, p5-MIME-Tools-5.425,2, p5-MIME-Types-1.23, p5-Mail-Tools-1.77, p5-Module-Pluggable-3.6, p5-Net-1.22,1, p5-Net-SSLeay-1.30_1, p5-PathTools-3.2700, p5-SOAP-Lite-0.69, p5-SVG-2.33, p5-SVG-Graph-0.01, p5-Scalar-List-Utils-1.19,1, p5-Storable-2.18, p5-Text-Iconv-1.7, p5-Text-Shellwords-1.08, p5-Tie-IxHash-1.21, p5-Time-Local-1.17, p5-Time-Piece-1.12, p5-TimeDate-1.16,1, p5-URI-1.35, p5-XML-DOM-1.44, p5-XML-DOM-XPath-0.13_1, p5-XML-Filter-BufferText-1.01, p5-XML-Handler-YAWriter-0.23, p5-XML-NamespaceSupport-1.09_1, p5-XML-Parser-2.36, p5-XML-RegExp-0.03, p5-XML-SAX-0.16, p5-XML-SAX-Expat-0.39, p5-XML-SAX-Writer-0.50, p5-XML-Simple-2.18, p5-XML-Twig-3.32, p5-XML-Writer-0.603, p5-XML-XPath-1.13, p5-XML-XPathEngine-0.08, p5-bioperl-1.5.1_1, p5-libwww-5.805, p5-libxml-0.08, perl-5.8.8_1, pkg-config-0.22_1, png-1.2.23_1
Also listed in: Perl5

paml-3.15
Phylogenetic Analysis by Maximum Likelihood (PAML)
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gettext-0.16.1_3, gmake-3.81_2, libiconv-1.11_1

phylip-3.66_1,1
A Phylogeny Inference Package
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

platon-2007.01.09_1
Tool for viewing molecular/crystallographic structures
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gcc-4.2.3_20080123, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, libgmp-4.2.2, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, mpfr-2.3.0, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

povchem-1.0_3
Simple yet powerful tool to generate POV from a PDB file
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, povray-3.6.1_2, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, svgalib-1.4.3_5, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Graphics

primer3-1.0.1
Primer3 helps to choose primers for PCR reactions
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar

protomol-2.0.3_1
OO, component based, framework for molecular dynamics (MD) simulations
Long description | Sources | Main Web Site
Maintained by: sangwoos@gmail.com
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libglut-7.0.1_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

psi88-1.0_1
Plotting wavefunctions (molecular orbitals) in 3D
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gcc-4.2.3_20080123, libgmp-4.2.2, libiconv-1.11_1, mpfr-2.3.0

py25-biopython-1.43
A collection of Python modules for bioinformatics
Long description | Sources | Main Web Site
Maintained by: mauricio@arareko.net
Requires: py25-mx-base-2.0.6, py25-numeric-24.2, py25-reportlab-1.21.1, python25-2.5.1_1
Also listed in: Python

pymol-0.99rc6_2
Free and Open-Source molecular modeling system
Long description | Sources | Main Web Site
Maintained by: maho@FreeBSD.org
Requires: blt-2.4z_2, compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, gmake-3.81_2, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libglut-7.0.1_1, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, py25-Pmw-1.3, py25-numeric-24.2, py25-tkinter-2.5.1_2, python25-2.5.1_1, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, tcl-8.4.17,1, tk-8.4.17,2, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Python

rasmol-2.7.2.1.1_1
Fast Molecular Visualization Program
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gccmakedep-1.0.2, imake-1.0.2_4,1, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, makedepend-1.0.1,1, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-cf-files-1.0.2_2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

raster3d-2.7.d_1
A set of tools for generating raster images of proteins and molecules
Long description | Sources | Main Web Site
Maintained by: shaun@FreeBSD.org
Requires: ImageMagick-6.3.6.9, expat-2.0.0_1, fontconfig-2.4.2_2,1, freetype2-2.3.5, ghostscript-gpl-8.60, gsfonts-8.11_4, inputproto-1.4.2.1, jasper-1.900.1_6, jbigkit-1.6, jpeg-6b_4, kbproto-1.0.3, lcms-1.17,1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXau-1.0.3_2, libXdmcp-1.0.2, libXext-1.0.3,1, libXt-1.0.5, libfpx-1.2.0.12_1, libiconv-1.11_1, libltdl-1.5.24, libxml2-2.6.31, mpeg2codec-1.2_3, perl-5.8.8_1, pkg-config-0.22_1, png-1.2.23_1, tiff-3.8.2_1, xextproto-7.0.2, xproto-7.0.10_1, xtrans-1.0.4
Also listed in: Graphics

recombine-1.41
A program to fit population models across sites
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

ruby18-bio-1.1.0
Integrated environment for Bioinformatics written in Ruby
Long description | Sources | Main Web Site
Maintained by: mauricio@arareko.net
Requires: ruby-1.8.6.111_1,1
Also listed in: Ruby

seaview-2006.02.13_2
Multiple DNA/protein sequence alignment editor
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fltk-1.1.7_3, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, pdflib-7.0.2, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

seqio-1.2.2
A set of C functions which can read/write biological sequence files
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

sim4-2003.09.21
An algorithm for aligning expressed DNA with genomic sequences
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

tRNAscan-SE-1.21
An improved tool for transfer RNA detection
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: perl-5.8.8_1

t_coffee-4.96
A multiple DNA or protein sequence alignment package
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: clustalw-2.0, gcc-3.3.6_5,1

tinker-4.2.20040908_1
A general purpose molecular modelling package
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: gcc-4.2.3_20080123, gccmakedep-1.0.2, imake-1.0.2_4,1, libgmp-4.2.2, libiconv-1.11_1, makedepend-1.0.1,1, mpfr-2.3.0, perl-5.8.8_1, pkg-config-0.22_1, xorg-cf-files-1.0.2_2, xproto-7.0.10_1

treepuzzle-5.2
Maximum likelihood phylogeny reconstruction using quartets
Long description | Sources | Main Web Site
Maintained by: jan.lentfer@web.de

treeviewx-0.5.1_2
A phylogenetic tree viewer
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar
Requires: ORBit2-2.14.11, atk-1.20.0, bitstream-vera-1.10_4, cairo-1.4.14, compositeproto-0.4, damageproto-1.1.0_2, encodings-1.0.2,1, expat-2.0.0_1, fixesproto-4.0, font-bh-ttf-1.0.0, font-misc-ethiopic-1.0.0, font-misc-meltho-1.0.0_1, font-util-1.0.1, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gconf2-2.20.1, gettext-0.16.1_3, glib-2.14.5, gmake-3.81_2, gnomehier-2.3_10, gstreamer-0.10.15, gstreamer-plugins-0.10.15,3, gtk-2.12.5, hicolor-icon-theme-0.10_2, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libIDL-0.8.9_1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libiconv-1.11_1, libmspack-0.0.20040308_3, liboil-0.3.12, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, linc-1.0.3_6, mkfontdir-1.0.3, mkfontscale-1.0.3, pango-1.18.4, pcre-7.4, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, popt-1.7_4, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, shared-mime-info-0.23, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, wxgtk2-2.8.5, wxgtk2-common-2.8.5, wxgtk2-contrib-2.8.5, wxgtk2-contrib-common-2.8.5, xbitmaps-1.0.1, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-fonts-truetype-7.3, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

wise-2.2.0
Intelligent algorithms for DNA searches
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org

wu-blast-2.0_20060322
WU BLAST, a software package for sequence similarity searches
Long description | Sources | Main Web Site
Maintained by: fernan@iib.unsam.edu.ar

xdrawchem-1.9.9_3
Chemical drawing program
Long description | Sources | Main Web Site
Maintained by: hemi@puresimplicity.net
Requires: compositeproto-0.4, cups-base-1.3.5_2, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, gmake-3.81_2, gnutls-2.0.2_1, inputproto-1.4.2.1, jpeg-6b_4, kbproto-1.0.3, lcms-1.17,1, libFS-1.0.0, libGL-7.0.1, libGLU-7.0.1, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libdrm-2.3.0, libfontenc-1.0.4, libgcrypt-1.2.4_1, libgpg-error-1.5, libiconv-1.11_1, libmng-1.0.9, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, libxml2-2.6.31, nas-1.8_1, openbabel-2.1.1, pixman-0.9.6, pkg-config-0.22_1, png-1.2.23_1, printproto-1.0.3, qt-3.3.8_6, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, tiff-3.8.2_1, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

xmolwt-0.7_3
Calculate formula weight and percent of each element for a given formula
Long description | Sources | Main Web Site
Maintained by: ports@FreeBSD.org
Requires: compositeproto-0.4, damageproto-1.1.0_2, expat-2.0.0_1, fixesproto-4.0, fontcacheproto-0.1.2, fontconfig-2.4.2_2,1, fontsproto-2.0.2, freetype2-2.3.5, gettext-0.16.1_3, glib-1.2.10_12, gmake-3.81_2, gtk-1.2.10_18, inputproto-1.4.2.1, kbproto-1.0.3, libFS-1.0.0, libICE-1.0.4,1, libSM-1.0.3,1, libX11-1.1.3,1, libXScrnSaver-1.1.2, libXTrap-1.0.0, libXau-1.0.3_2, libXaw-1.0.4,1, libXcomposite-0.4.0,1, libXcursor-1.1.9, libXdamage-1.1.1, libXdmcp-1.0.2, libXevie-1.0.2, libXext-1.0.3,1, libXfixes-4.0.3, libXfont-1.3.1_2,1, libXfontcache-1.0.4, libXft-2.1.12, libXi-1.1.3,1, libXinerama-1.0.2,1, libXmu-1.0.3,1, libXp-1.0.0,1, libXpm-3.5.7, libXprintAppUtil-1.0.1, libXprintUtil-1.0.1, libXrandr-1.2.2, libXrender-0.9.4, libXres-1.0.3_2, libXt-1.0.5, libXtst-1.0.3, libXv-1.0.3,1, libXvMC-1.0.4, libXxf86dga-1.0.2, libXxf86misc-1.0.1, libXxf86vm-1.0.1, libdmx-1.0.2, libfontenc-1.0.4, libiconv-1.11_1, liboldX-1.0.1, libxkbfile-1.0.4, libxkbui-1.0.2, perl-5.8.8_1, pixman-0.9.6, pkg-config-0.22_1, printproto-1.0.3, randrproto-1.2.1, recordproto-1.13.2, renderproto-0.9.3, scrnsaverproto-1.1.0, trapproto-3.4.3, videoproto-2.2.2, xextproto-7.0.2, xf86dgaproto-2.0.3, xf86miscproto-0.9.2, xf86vidmodeproto-2.2.2, xineramaproto-1.1.2, xorg-libraries-7.3_1, xproto-7.0.10_1, xtrans-1.0.4

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