There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 09 Nov 2006 20:37:38 Also Listed In:gnustep License: GPLv2
Advanced Functional Neuro Imaging Maintained by:jwbacon@tds.net Port Added: 25 Jan 2006 17:37:44 Also Listed In:sciencegraphics License: not specified in port
Programs to compare protein sequences and profiles
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 22 Jun 2004 14:31:00 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 22 Dec 2001 11:39:40 Also Listed In:java License: not specified in port
An auto-adaptive genetic system designed for ALife research
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 20 Apr 2002 15:17:56 License: GPLv3
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown Also Listed In:converters License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 30 Dec 2006 09:21:22 Also Listed In:gnustep License: LGPL21
Open-source Java tools for processing biological data Maintained by:wenheping@gmail.com Port Added: 10 Oct 2000 08:14:04 Also Listed In:java License: not specified in port
IGNORE: You must manually fetch wu-blast2 for the FreeBSD platform (blast2.freebsd-6.x-x64.tar.Z) from http://blast.wustl.edu/licensing, place it in /usr/ports/distfiles and then run make again RESTRICTED: License does not allow redistribution of binaries. You should first register for the software, which is free for academic use. WU BLAST, a software package for sequence similarity searches Maintained by:wen@FreeBSD.org Port Added: 11 Nov 2004 21:47:25 License: not specified in port
A fast tool for local sequence similarity searches
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 15 Mar 2006 10:29:12 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 10 Jul 2000 00:14:19 Also Listed In:textproc License: not specified in port
RESTRICTED: No commercial use. A multiple alignment program for DNA or proteins Maintained by:wen@FreeBSD.org Port Added: 10 Jul 2000 00:17:41 License: not specified in port
RESTRICTED: Redistribution is not permitted in any form. You must request access permission via e-mail to get the tarball. Free for academic use. A graphical tool for editing Phrap assemblies Maintained by:mzaki@biol.s.u-tokyo.ac.jp Port Added: 24 May 2008 07:01:28 License: not specified in port
Software toolkit for phylogenetic inference Maintained by:jasone@FreeBSD.org Port Added: 08 Jun 2009 23:51:06 Also Listed In:python License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 30 Jun 2005 14:05:46 Also Listed In:deskutilspython License: GPLv2
BROKEN: checksum mismatch IGNORE: is marked as broken: checksum mismatch A viewer for multiple sequence alignments
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 15 Mar 2006 10:36:50 License: not specified in port
A collection of open source tools for genetic sequence analysis Maintained by:wen@FreeBSD.org Port Added: 31 Jul 2000 16:13:54 License: not specified in port
NO CDROM: May not be sold or incorporated into a commercial product A collection of programs for searching DNA and protein databases
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 11 Feb 2001 13:24:20 License: not specified in port
NO CDROM: May not be sold or incorporated into a commercial product A collection of programs for searching DNA and protein databases Maintained by:wen@FreeBSD.org Port Added: 11 Feb 2001 13:29:00 License: not specified in port
Faster DNAML, makes phylogenetic trees using maximum likelihood
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 12 Oct 2000 09:31:14 License: GPLv2
IGNORE: is only for i386, while you are running amd64 A chromatogram trace viewer
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 11 Mar 2005 21:16:55 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 06 Aug 2001 11:45:39 License: not specified in port
A set of small utilities to manipulate DNA sequences
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 27 Feb 2001 23:46:53 License: not specified in port
Converts gff-formated genomic data-sets to PostScript
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 19 Dec 2001 07:03:28 License: GPLv2
A Genomic Mapping and Alignment Program for mRNA and EST Sequences Maintained by:rpz@cse.wustl.edu Port Added: 29 Sep 2006 04:09:50 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
Genome Rearrangements Analysis and Phylogeny Software
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 04 Jul 2001 05:39:40 License: not specified in port
A viewer and editor for multiple sequence alignments
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 13 Feb 2006 09:43:01 Also Listed In:java License: not specified in port
Efficient tools for large-scale multiple alignments of genomic DNA
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 16 Mar 2006 22:31:50 License: GPLv2
A package of programs for computing population parameters
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 07 Aug 2001 05:17:58 License: AL2
Toolkit for developing bioinformatic related software in C++
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 30 Jul 2002 10:57:35 License: not specified in port
API Library for Working with SBML File Maintained by:wen@FreeBSD.org Port Added: 28 May 2009 23:36:42 Also Listed In:devel License: not specified in port
Constructs linkage maps of markers segregating in experimental crosses Maintained by:tphilipp@potion-studios.com Port Added: 06 Apr 2008 04:49:23 License: not specified in port
A program to estimate population sizes and migration rates Maintained by:wen@FreeBSD.org Port Added: 06 Aug 2001 10:07:46 License: not specified in port
RESTRICTED: free for academic, non profit usage; do not re-distribute source and executable. Display molecular orbitals and electron densities in 2D and 3D
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
Semi-empirical (MNDO, etc.) molecular orbital calculation
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
NCBI development toolkit, including BLAST 2 and GenBank/Entrez support
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 29 Oct 2000 10:56:24 License: not specified in port
Phylogenetic tree drawing program capable of interactive manipulation Maintained by:mzaki@m.u-tokyo.ac.jp Port Added: 14 May 2008 14:07:25 License: not specified in port
The Oak Ridge Thermal Ellipsoid Plot Program for Crystal Structure
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
Perl5 interface to the ACEDB genome database system Maintained by:perl@FreeBSD.org Port Added: 28 Jul 2000 10:16:10 Also Listed In:databasesperl5 License: not specified in port
Regular expression-based Perl Parser for NCBI Entrez Gene Maintained by:mauricio@arareko.net Port Added: 15 Oct 2005 20:11:03 Also Listed In:perl5 License: not specified in port
Client-side library for Distributed Genome Annotation System Maintained by:perl@FreeBSD.org Port Added: 01 Sep 2005 13:10:39 Also Listed In:perl5 License: not specified in port
Perl extension for the DAS (HTTP+XML) Protocol Maintained by:perl@FreeBSD.org Port Added: 01 Mar 2010 09:16:56 Also Listed In:perl5 License: not specified in port
Fast low-level functions for parsing and formatting GFF3 Maintained by:perl@FreeBSD.org Port Added: 22 Apr 2011 08:51:49 Also Listed In:perl5 License: ART10 GPLv1
Object-oriented Perl API for the NEXUS file format Maintained by:perl@FreeBSD.org Port Added: 22 Aug 2009 20:40:26 Also Listed In:perl5 License: not specified in port
Read and Update SCF Chromatographic Sequence Files Maintained by:wen@FreeBSD.org Port Added: 28 Aug 2009 23:38:55 Also Listed In:perl5 License: not specified in port
A collection of Perl modules for bioinformatics Maintained by:wen@FreeBSD.org Port Added: 28 Jul 2000 11:06:03 Also Listed In:perl5 License: not specified in port
Wrapper modules for common bioinformatics tools Maintained by:mauricio@arareko.net Port Added: 02 May 2006 21:32:38 Also Listed In:perl5 License: not specified in port
IGNORE: you must request the source code (phd2fasta-acd-dist.tar.Z) via e-mail, place it manually in /usr/ports/distfiles, and then try it again RESTRICTED: Redistribution is not permitted in any form. You must request the tarball via e-mail. Free for academic use. A converter from output files of Phred/Consed to FASTA files Maintained by:mzaki@biol.s.u-tokyo.ac.jp Port Added: 24 May 2008 07:02:33 License: not specified in port
IGNORE: you must request the source code \(distrib.tar.Z\) via e-mail, place it manually in /usr/ports/distfiles/phrap, and then try it again RESTRICTED: Redistribution is not permitted in any form. You must request the tarball via e-mail. Free for academic use. Phrap is a program for assembling shotgun DNA sequence data Maintained by:mzaki@biol.s.u-tokyo.ac.jp Port Added: 24 May 2008 07:03:43 License: not specified in port
RESTRICTED: Redistribution is not permitted in any form. You must request the tarball via e-mail. Free for academic use. Base calling and quality value assignment on DNA sequencing Maintained by:mzaki@biol.s.u-tokyo.ac.jp Port Added: 24 May 2008 07:05:09 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 10 Jul 2000 00:25:48 License: not specified in port
Simple, fast, and accurate algorithm to estimate large phylogenies
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 21 Jul 2009 01:10:33 License: GPLv2
RESTRICTED: free for academic, US5000 for commercial users Tool for viewing molecular/crystallographic structures
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
Toolset for working with human genetic variation data Maintained by:jwbacon@tds.net Port Added: 27 Sep 2012 10:00:09 Also Listed In:science License: GPLv2
Simple yet powerful tool to generate POV from a PDB file
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown Also Listed In:graphics License: not specified in port
OO, component based, framework for molecular dynamics (MD) simulations Maintained by:sangwoos@gmail.com Port Added: 05 May 2006 20:12:57 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
Collection of Python modules for bioinformatics Maintained by:mauricio@arareko.net Port Added: 31 Jul 2000 09:12:24 Also Listed In:python License: not specified in port
A toolkit for statistical analysis of biological sequences Maintained by:wen@FreeBSD.org Port Added: 22 Jun 2009 12:47:26 Also Listed In:python License: not specified in port
Fast, memory-efficient, pythonic access to fasta sequence files Maintained by:wen@FreeBSD.org Port Added: 18 Nov 2009 05:53:48 Also Listed In:python License: not specified in port
Free and Open-Source molecular modeling system Maintained by:maho@FreeBSD.org Port Added: 13 Aug 2002 11:53:54 Also Listed In:python License: not specified in port
A generic nexus file format reader for python Maintained by:wen@FreeBSD.org Port Added: 29 Dec 2009 13:39:49 Also Listed In:python License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
A set of tools for generating raster images of proteins and molecules
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 28 Apr 2006 14:21:11 Also Listed In:graphics License: ART20
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 06 Aug 2001 11:49:53 License: not specified in port
Integrated environment for Bioinformatics written in Ruby Maintained by:mauricio@arareko.net Port Added: 24 Oct 2001 03:21:52 Also Listed In:ruby License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
A set of C functions which can read/write biological sequence files
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 22 Aug 2001 09:07:26 License: not specified in port
An algorithm for aligning expressed DNA with genomic sequences
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 27 Jul 2000 11:33:01 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 21 Jun 2008 00:02:14 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 27 Mar 2002 14:19:04 License: not specified in port
A multiple DNA or protein sequence alignment package
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 25 Jan 2002 11:58:16 License: GPLv2
RESTRICTED: author requests no distribution except from his FTP site A general purpose molecular modelling package
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: unknown License: not specified in port
Maximum likelihood phylogeny reconstruction using quartets Maintained by:jan.lentfer@web.de Port Added: 20 Nov 2002 09:04:07 License: not specified in port
There is no maintainer for this port. Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org Port Added: 17 Aug 2001 05:39:29 License: not specified in port
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