Author: tille Date: Tue Aug 18 13:25:57 2009 New Revision: 1774 URL: http://svn.debian.org/viewsvn/blends?rev=1774&view=rev
Log: acedb is in new with specific binary names. WHen using these the packages are found by the blends tools s/Depends/Recommends/ Modified: projects/med/trunk/debian-med/tasks/bio Modified: projects/med/trunk/debian-med/tasks/bio URL: http://svn.debian.org/viewsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=1774&view=diff&r1=1774&r2=1773&p1=projects/med/trunk/debian-med/tasks/bio&p2=projects/med/trunk/debian-med/tasks/bio ============================================================================== --- projects/med/trunk/debian-med/tasks/bio (original) +++ projects/med/trunk/debian-med/tasks/bio Tue Aug 18 13:25:57 2009 @@ -3,60 +3,60 @@ This metapackage will install Debian packages related to molecular biology, structural biology and bioinformatics for use in life sciences. -Depends: altree, fastdnaml, njplot, tree-puzzle | tree-ppuzzle, treeviewx +Recommends: altree, fastdnaml, njplot, tree-puzzle | tree-ppuzzle, treeviewx Why: Phylogenetic analysis. -Depends: molphy, phylip, treetool +Recommends: molphy, phylip, treetool Why: Phylogenetic analysis (Non-free, thus only suggested). -Depends: fastlink, loki, plink, r-cran-qtl +Recommends: fastlink, loki, plink, r-cran-qtl Why: Genetics -Depends: amap-align, blast2, boxshade, dialign, dialign-tx, gff2aplot, hmmer, kalign, mafft, mummer, muscle, poa, probcons, proda, seaview, sim4, sibsim4, sigma-align, t-coffee, wise, exonerate +Recommends: amap-align, blast2, boxshade, dialign, dialign-tx, gff2aplot, hmmer, kalign, mafft, mummer, muscle, poa, probcons, proda, seaview, sim4, sibsim4, sigma-align, t-coffee, wise, exonerate Why: Sequence alignments and related programs. -Depends: last-align, maq, ssake, velvet +Recommends: last-align, maq, ssake, velvet Why: Tools related to high-throughput sequencing. -Depends: emboss, embassy-domalign, embassy-domainatrix +Recommends: emboss, embassy-domalign, embassy-domainatrix Suggests: emboss-explorer Why: The EMBOSS sequence analysis suite and its galaxy. -Depends: arb, clustalw | clustalw-mpi, clustalx +Recommends: arb, clustalw | clustalw-mpi, clustalx Why: Sequence alignments and related programs (Non-free, thus only suggested). -Depends: infernal, rnahybrid +Recommends: infernal, rnahybrid Why: For the analysis of RNA sequences. -Depends: adun.app, garlic, gamgi, gdpc, ghemical, gromacs, pymol, rasmol, r-other-bio3d, massxpert +Recommends: adun.app, garlic, gamgi, gdpc, ghemical, gromacs, pymol, rasmol, r-other-bio3d, massxpert Why: Molecular modelling and molecular dynamics. Comment: r-other-bio3d depends from r-cran-rocr which is also maintained by Debian Med team -Depends: plasmidomics +Recommends: plasmidomics Why: Presentation -Depends: biosquid, gff2ps, mipe, melting, ncbi-epcr, ncbi-tools-bin, ncbi-tools-x11, perlprimer, primer3, readseq, tigr-glimmer +Recommends: biosquid, gff2ps, mipe, melting, ncbi-epcr, ncbi-tools-bin, ncbi-tools-x11, perlprimer, primer3, readseq, tigr-glimmer Why: Tools for the molecular biologist. Suggests: mozilla-biofox Why: Tools for the molecular biologist. Because of the dependency from firefox we only suggest this package to not bloat the system of the user. -Depends: glam2 +Recommends: glam2 Why: Motif search -Depends: sequenceconverter.app +Recommends: sequenceconverter.app -Depends: raster3d +Recommends: raster3d -Depends: phyml +Recommends: phyml -Depends: autodock +Recommends: autodock Friends: autogrid Registration: http://autodock.scripps.edu/downloads/autodock-registration Why: Molecular modelling and molecular dynamics. -Depends: autodocktools +Recommends: autodocktools Friends: mgltools-dejavu, mgltools-pmv, mgltools-utpackages, mgltools-vision, mgltools-volume, mgltools-bhtree, mgltools-geomutils, mgltools-opengltk, mgltools-pyglf, mgltools-sff Comment: The package autodocktools depends from the mgltools-* packages mentioned above, so they will be installed even if they would not be mentioned in @@ -65,11 +65,11 @@ http://qa.debian.org/[email protected]&ordering=3 so they are mentioned here in addition to autodocktools. -Depends: mustang +Recommends: mustang -Depends: theseus +Recommends: theseus -Depends: pdb2pqr +Recommends: pdb2pqr Homepage: http://pdb2pqr.sourceforge.net/ Responsible: Manuel Prinz <[email protected]> License: GPL @@ -88,7 +88,7 @@ Debian already. I have had good contact with both upstream authors in the past. -Depends: r-other-genabel +Recommends: r-other-genabel Homepage: http://mga.bionet.nsc.ru/nlru/GenABEL/ Responsible: Steffen Moeller <[email protected]> License: GPL 2+ @@ -98,7 +98,7 @@ A package for genome-wide association analysis between quantitative or binary traits and single-nucleiotide polymorphisms (SNPs). -Depends: meme +Recommends: meme Homepage: http://meme.nbcr.net/meme/ Responsible: Steffen Moeller <[email protected]> License: non-free for commercial purpose (http://meme.nbcr.net/meme/COPYRIGHT.html) @@ -117,7 +117,7 @@ techniques to automatically choose the best width, number of occurrences, and description for each motif. -Depends: vienna-rna +Recommends: vienna-rna Homepage: http://www.tbi.univie.ac.at/~ivo/RNA/ Responsible: Steffen Moeller <[email protected]> License: non-free but redistributable @@ -127,7 +127,7 @@ stand-alone programs for the prediction and comparison of RNA secondary structures. -Depends: cytoscape +Recommends: cytoscape Homepage: http://cytoscape.org/ Responsible: Mike Smoot <[email protected]> License: LGPL @@ -137,7 +137,7 @@ interaction networks and integrating these interactions with gene expression profiles and other state data. Additional features are available as plugins. -Depends: ballview +Recommends: ballview Homepage: http://www.ballview.org Responsible: Andreas Hildebrandt <[email protected]> Pkg-URL: http://ftp-master.debian.org/new/ball_1.3+beta2.1-2.html @@ -159,7 +159,7 @@ for Molecular Mechanics, advanced solvation methods, comparison and analysis of protein structures, file import/export, and visualization. -Depends: raxml +Recommends: raxml Homepage: http://icwww.epfl.ch/~stamatak/index-Dateien/Page443.htm License: GPL Pkg-Description: Randomized Axelerated Maximum Likelihood @@ -171,7 +171,7 @@ http://phylobench.vital-it.ch/raxml-bb/ and http://8ball.sdsc.edu:8889/cipres-web/Bootstrap.do . -Depends: axparafit +Recommends: axparafit Homepage: http://icwww.epfl.ch/~stamatak/AxParafit.html Responsible: David Paleino <[email protected]> License: GPL @@ -183,7 +183,7 @@ for compute clusters and was used to carry out the largest co-evolutionary analysis to date for the paper describing the software. -Depends: axpcoords +Recommends: axpcoords Homepage: http://icwww.epfl.ch/~stamatak/AxParafit.html Responsible: David Paleino <[email protected]> License: GPL @@ -196,7 +196,7 @@ This program is required for the pipeline that conducts a full host-parasite co-phylogenetic analysis in combination with AxParafit. -Depends: copycat +Recommends: copycat Homepage: http://www-ab.informatik.uni-tuebingen.de/software/copycat/welcome.html License: Use of the program is free for academic purposes at an academic institute. For all other uses, please contact the authors. Pkg-Description: fast access to cophylogenetic analyses @@ -207,7 +207,7 @@ creation of customized host-parasite association data and the computation of phylogenetic host/parasite trees based on the NCBI taxonomy. -Depends: btk-core +Recommends: btk-core Homepage: http://sourceforge.net/projects/btk/ Responsible: Morten Kjeldgaard <[email protected]> License: GPL @@ -218,7 +218,7 @@ for common tasks in structural biology to facilitate the development of molecular modeling, design and analysis tools. -Depends: tacg +Recommends: tacg Homepage: http://sourceforge.net/projects/tacg Responsible: Charles Plessy <[email protected]> License: GPL and others @@ -244,7 +244,7 @@ The use of tacg may be cited as: Mangalam, HJ. (2002) tacg, a grep for DNA. BMC Bioinformatics. 3:8 http://www.biomedcentral.com/1471-2105/3/8 -Depends: treeplot +Recommends: treeplot Responsible: Charles Plessy <[email protected]> License: GPL WNPP: 461508 @@ -263,7 +263,7 @@ package.' So this package should probably be delisted in favour of populations (see http://lists.debian.org/debian-med/2008/03/msg00124.html). -Depends: treevolve +Recommends: treevolve Homepage: http://evolve.zoo.ox.ac.uk/software.html?id=Treevolve Responsible: Charles Plessy <[email protected]> License: has to be verified @@ -285,7 +285,7 @@ Citation: Population dynamics of HIV-1 inferred from gene sequences Grassly NC, Harvey PH & Holmes EC (1999) Genetics 151, 427-438. -Depends: asap +Recommends: asap Homepage: http://asap.ahabs.wisc.edu/software/asap/ Responsible: Andreas Tille <[email protected]> License: GPL @@ -312,7 +312,7 @@ installations come to pass, ASAP will be further extended to be inter-operable between sites. -Depends: emboss-kaptain +Recommends: emboss-kaptain Homepage: http://userpage.fu-berlin.de/~sgmd/download.html Responsible: Charles Plessy <[email protected]> License: GPL-2+ @@ -325,7 +325,7 @@ analysis. With EMBOSS.kaptn it integrates nicely into X window based desktops like KDE. -Depends: agdbnet +Recommends: agdbnet Homepage: http://pubmlst.org/software/database/agdbnet/ Responsible: Andreas Tille <[email protected]> License: GPL @@ -348,7 +348,7 @@ * Campylobacter flaA * Streptococcus equi seM -Depends: martj +Recommends: martj Homepage: http://www.ebi.ac.uk/biomart/ Responsible: Steffen Moeller <[email protected]> License: GPL @@ -359,7 +359,7 @@ to the following data sources: UniProt Proteomes, Macromolecular Structure Database (MSD), Ensembl, Vega, and dbSNP. -Depends: cluster3 +Recommends: cluster3 Homepage: http://bonsai.ims.u-tokyo.ac.jp/~mdehoon/software/cluster/software.htm#ctv License: non-free WNPP: 286167 @@ -375,7 +375,7 @@ distance and the city-block distance were added to the available measures of similarity. -Depends: jmol +Recommends: jmol Homepage: http://jmol.sourceforge.net/ Responsible: Vincent Fourmond <[email protected]> License: LGPL @@ -398,7 +398,7 @@ http://lists.debian.org/debian-med/2008/03/msg00097.html before you might download the source packages http://debian.wgdd.de/temp/jmol/ -Depends: jtreeview +Recommends: jtreeview Homepage: http://jtreeview.sourceforge.net/ Responsible: Steffen Moeller <[email protected]> License: GPL @@ -415,7 +415,7 @@ Java TreeView is an extensible viewer for microarray data in PCL or CDT format. -Depends: smile +Recommends: smile Homepage: http://www-igm.univ-mlv.fr/~marsan/smile_english.html Responsible: Steffen Moeller <[email protected]> WNPP: 221492 @@ -430,7 +430,7 @@ The specificity of SMILE is to allow to deal with what we call structured motifs, which are motifs associated by some distance constraints. -Depends: cactus +Recommends: cactus Homepage: http://www.cactuscode.org/Community/Biology.html License: GPL Pkg-Description: @@ -444,7 +444,7 @@ Metacomputing Toolkit, HDF5 parallel file I/O, the PETSc scientific library, adaptive mesh refinement, web interfaces, and advanced visualization tools. -Depends: contralign +Recommends: contralign Homepage: http://contra.stanford.edu/contralign/ License: Public Domain Pkg-Description: parameter learning framework for protein pairwise sequence alignment @@ -455,7 +455,7 @@ previously unseen sequences and avoid overfitting by controlling model complexity through regularization. -Depends: galaxy +Recommends: galaxy Homepage: http://g2.trac.bx.psu.edu/ License: MIT WNPP: 432472 @@ -466,7 +466,7 @@ strong ties with the UCSC genome browser, and makes it easy to visualise modified annotation files as a custom track. -Depends: genographer +Recommends: genographer Homepage: http://hordeum.oscs.montana.edu/genographer/ License: GPL Pkg-Description: read data and reconstruct them into a gel image @@ -478,7 +478,7 @@ The program is written in Java and uses the Java 1.3 API. Therefore, it should run on any machine that can run java. -Depends: molekel +Recommends: molekel Homepage: http://bioinformatics.org/molekel/wiki/Main/HomePage License: GPL Pkg-Description: multiplatform molecular visualization @@ -486,7 +486,7 @@ program being developed at the Swiss National Supercomputing Centre (CSCS). -Depends: pftools +Recommends: pftools Homepage: ftp://us.expasy.org/databases/prosite/tools/ps_scan/sources License: GPL Pkg-Description: tools to handle patterns from PROSITE @@ -495,7 +495,7 @@ in Swiss-Prot or FASTA format. It requires two compiled external programs from the PFTOOLS, which are also distributed with the sources. -Depends: proalign +Recommends: proalign Homepage: http://evol-linux1.ulb.ac.be/ueg/ProAlign/ License: GPL Responsible: Charles Plessy <[email protected]> @@ -515,7 +515,7 @@ characters according to an evolutionary model. It has been published in Bioinformatics. 2003 Aug 12;19(12):1505-13. -Depends: ssaha +Recommends: ssaha Homepage: http://www.sanger.ac.uk/Software/analysis/SSAHA/ License: GPL Responsible: Charles Plessy <[email protected]> @@ -535,7 +535,7 @@ http://www.sanger.ac.uk/Software/analysis/SSAHA2/ does not seem to be available. -Depends: ngila +Recommends: ngila Homepage: http://scit.us/projects/ngila/ License: GPLv3 Responsible: Charles Plessy <[email protected]> @@ -560,7 +560,7 @@ Ngila is published in Cartwright RA Bioinformatics 2007 23(11):1427-1428; doi:10.1093/bioinformatics/btm095 -Depends: tm-align +Recommends: tm-align Homepage: http://zhang.bioinformatics.ku.edu/TM-align/ License: free to change and redistribute Responsible: Steffen Moeller <[email protected]> @@ -574,7 +574,7 @@ TM-align performs a structural alignment of protein sequences. It is said to be 10 times faster than DALI and no worse in accuracy. -Depends: staden-io-lib-utils +Recommends: staden-io-lib-utils Homepage: http://staden.sourceforge.net/ Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/staden-io-lib/trunk/?rev=0&sc=0 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/staden-io-lib/trunk/ @@ -592,7 +592,7 @@ to maniuplate short reads generated by second and third generation sequencers and stored in SRF format. -Depends: dazzle +Recommends: dazzle Homepage: http://www.biojava.org/dazzle Responsible: Steffen Moeller <[email protected]> License: LGPL @@ -607,7 +607,7 @@ . Information on DAS is available from http://www.biodas.org/ -Depends: ecell +Recommends: ecell Homepage: http://www.e-cell.org/ Responsible: Steffen Moeller <[email protected]> WNPP: 241195 @@ -632,7 +632,7 @@ * E-Cell Modeling Environment (or E-Cell ME) * E-Cell Analysis Toolkit. -Depends: ncoils +Recommends: ncoils Homepage: http://www.russell.embl.de/cgi-bin/coils-svr.pl Responsible: Steffen Moeller <[email protected]> WNPP: 299856 @@ -644,7 +644,7 @@ Lupas, van Dyke & Stock, Predicting coiled coils from protein sequences Science, 252, 1162-1164, 1991. -Depends: haploview +Recommends: haploview Homepage: http://www.broad.mit.edu/mpg/haploview/ Responsible: Steffen Moeller <[email protected]> WNPP: 311421 @@ -656,7 +656,7 @@ to determine genes and genetic pathways that are associated with diseases. This is an early stage in the quest for new drugs. -Depends: bio-mauve +Recommends: bio-mauve Homepage: http://asap.ahabs.wisc.edu/mauve/ Responsible: Andreas Tille <[email protected]> License: GPL @@ -685,7 +685,7 @@ Note: There are instructions for compiling Mauve from source available at http://asap.ahabs.wisc.edu/mauve/mauve-developer-guide/compiling-mauvealigner-from-source.html -Depends: mauvealigner +Recommends: mauvealigner Homepage: http://asap.ahabs.wisc.edu/mauve/ Responsible: Andreas Tille <[email protected]> License: GPL @@ -718,7 +718,7 @@ . Mauve is developed at the University of Wisconsin. -Depends: gbrowse +Recommends: gbrowse Homepage: http://www.gmod.org/wiki/index.php/GBrowse Responsible: Charles Plessy <[email protected]> WNPP: 429610 @@ -742,7 +742,7 @@ * Customizable plug-in architecture (e.g. run BLAST, dump & import many formats, find oligonucleotides, design primers, create restriction maps, edit features) -Depends: mira +Recommends: mira Homepage: http://chevreux.org/projects_mira.html Responsible: Charles Plessy <[email protected]> WNPP: 435915 @@ -761,7 +761,7 @@ between organisms, and pristine assembly of sequences from various sources for oligo design in clinical microarray experiments. -Depends: phylographer +Recommends: phylographer Homepage: http://www.atgc.org/PhyloGrapher/PhyloGrapher_Welcome.html Responsible: Charles Plessy <[email protected]> WNPP: 426489 @@ -780,7 +780,7 @@ biological sequence alignment reports (BLAST is provided by Debian's blast2 package). -Depends: phylowin +Recommends: phylowin Homepage: http://pbil.univ-lyon1.fr/software/phylowin.html Responsible: Charles Plessy <[email protected]> WNPP: 395840 @@ -799,7 +799,7 @@ its use for profit. Therfore, Phylo_win will unfortunately have to be distributed in contrib or non-free. -Depends: seq-gen +Recommends: seq-gen Homepage: http://tree.bio.ed.ac.uk/software/seqgen/ License: Free Pkg-Description: simulate the evolution of nucleotide or amino acid sequences @@ -815,7 +815,7 @@ incorporates most of the commonly used (and computationally tractable) models of molecular sequence evolution. -Depends: wgs-assembler +Recommends: wgs-assembler Homepage: http://wgs-assembler.sourceforge.net/ Responsible: Charles Plessy <[email protected]> WNPP: 395843 @@ -859,7 +859,7 @@ See also: http://www.jcvi.org/cms/research/software/celera-assembler/overview/ Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/) -Depends: gbioseq +Recommends: gbioseq Homepage: http://www.bioinformatics.org/project/?group_id=94 License: GPL Pkg-Description: DNA sequence editor for Linux @@ -867,7 +867,7 @@ The goal is to provide an easy to use software to edit DNA sequences under Linux, Windows, MacOsX, using GTK C# (Mono). -Depends: populations +Recommends: populations Homepage: http://bioinformatics.org/~tryphon/populations/ License: GPL Pkg-Description: individuals or populations distances based on allelic frequencies @@ -884,14 +884,14 @@ * Converts data files from Genepop to different formats (Genepop, Genetix, Msat, Populations...) -Depends: phpphylotree +Recommends: phpphylotree Homepage: http://www.bioinformatics.org/project/?group_id=372 License: GPL Pkg-Description: draw phylogenetic trees PhpPhylotree is a web application that is able to draw phylogenetic trees. It produces an SVG (Scalable Vector Graphic) file from phylip/newick tree files. -Depends: tracetuner +Recommends: tracetuner Homepage: http://www.jcvi.org/cms/research/software/tracetuner/overview License: GPL; but US Patent #6,681,186 Pkg-Description: DNA sequencing and trace processing @@ -920,7 +920,7 @@ and conditions of the GNU General Public License, version 2, as published by the Free Software Foundation (the "GNU General Public License"). -Depends: twain +Recommends: twain Homepage: http://cbcb.umd.edu/software/pirate/twain/twain.shtml License: Open Source Pkg-Description: syntenic genefinder employing a Generalized Pair Hidden Markov Model @@ -943,7 +943,7 @@ Slides from a talk at Computational Genomics 2004 are now available. Note: Computational Gene Finding (http://www.cbcb.umd.edu/software/) -Depends: rose +Recommends: rose Homepage: http://www.cbcb.umd.edu/software/rose/Rose.html License: Open Source Pkg-Description: Region-Of-Synteny Extractor @@ -962,7 +962,7 @@ boundaries of the output region. Note: Computational Gene Finding (http://www.cbcb.umd.edu/software/) -Depends: glimmerhmm +Recommends: glimmerhmm Homepage: http://www.cbcb.umd.edu/software/glimmerhmm/ License: Artistic Pkg-Description: Eukaryotic Gene-Finding System @@ -977,7 +977,7 @@ user manual can be consulted here. Note: Computational Gene Finding (http://www.cbcb.umd.edu/software/) -Depends: genezilla +Recommends: genezilla Homepage: http://www.genezilla.org/ License: Artistic Pkg-Description: eukaryotic gene finder @@ -1004,7 +1004,7 @@ for the comparative gene finder TWAIN. Note: Computational Gene Finding (http://www.cbcb.umd.edu/software/) -Depends: exalt +Recommends: exalt Homepage: http://www.cbcb.umd.edu/software/exalt/ License: Artistic Pkg-Description: phylogenetic generalized hidden Markov model for predicting alternatively spliced exons @@ -1018,7 +1018,7 @@ run on other species. Note: Computational Gene Finding (http://www.cbcb.umd.edu/software/) -Depends: jigsaw +Recommends: jigsaw Homepage: http://www.cbcb.umd.edu/software/jigsaw/ License: Artistic Pkg-Description: gene prediction using multiple sources of evidence @@ -1046,7 +1046,7 @@ custom tracks in the UCSC Human Genome Browser Note: Computational Gene Finding (http://www.cbcb.umd.edu/software/) -Depends: genesplicer +Recommends: genesplicer Homepage: http://www.cbcb.umd.edu/software/GeneSplicer/ License: Artistic Pkg-Description: computational method for splice site prediction @@ -1113,7 +1113,7 @@ packaging effort is stalled. Feel free to tell us, if you are interested in turning this into an official package. -Depends: mummergpu +Recommends: mummergpu Homepage: http://mummergpu.sourceforge.net/ License: Artistic Pkg-Description: High-throughput sequence alignment using Graphics Processing Units @@ -1141,7 +1141,7 @@ technologies. Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/) -Depends: amos-assembler +Recommends: amos-assembler Homepage: http://amos.sourceforge.net/ License: Artistic Pkg-Description: modular whole genome assembler @@ -1158,7 +1158,7 @@ design philosophy and a software system. Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/) -Depends: amoscmp +Recommends: amoscmp Homepage: http://amos.sourceforge.net/docs/pipeline/AMOScmp.html License: Artistic Pkg-Description: comparative genome assembly package @@ -1187,7 +1187,7 @@ modular open-source framework for assembly development. Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/) -Depends: minimus +Recommends: minimus Homepage: http://amos.sourceforge.net/docs/pipeline/minimus.html License: Artistic Pkg-Description: AMOS lightweight assembler @@ -1279,7 +1279,7 @@ Note: Found at http://gforge.nci.nih.gov/softwaremap/trove_list.php?form_cat=337 -Depends: mage2tab +Recommends: mage2tab Homepage: https://www.cbil.upenn.edu/magewiki/index.php/mage2tab License: CBIL Software and Data License (Apache-like) WNPP: 476209 @@ -1291,7 +1291,7 @@ MINiML) from or into databases like GUS (the Genomics Unified Schema, www.gusdb.org). -Depends: bambus +Recommends: bambus Homepage: http://amos.sourceforge.net/docs/bambus/ License: Artistic Pkg-Description: hierarchical approach to building contig scaffolds @@ -1306,7 +1306,7 @@ integrated with the AMOS package (see http://amos.sourceforge.net/) Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/) -Depends: hawkeye +Recommends: hawkeye Homepage: http://amos.sourceforge.net/hawkeye/ License: Artistic Pkg-Description: Interactive Visual Analytics Tool for Genome Assemblies @@ -1339,7 +1339,7 @@ assemblies. Genome Biology 8:R34. Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/) -Depends: murasaki +Recommends: murasaki Homepage: http://murasaki.dna.bio.keio.ac.jp/ License: GPL Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/murasaki/trunk/ @@ -1358,7 +1358,7 @@ * repeat tolerant * intelligent noise reduction -Depends: gmv +Recommends: gmv Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/index.php?GMV License: GPL Pkg-Description: comparative genome browser for Murasaki @@ -1366,14 +1366,14 @@ anchors from Murasaki, annotation data from GenBank files, and expression / prediction score from GFF files. -Depends: pyrophosphate-tools +Recommends: pyrophosphate-tools Homepage: http://www-naweb.iaea.org/nafa/ipc/public/d4_pbl_6a.html License: not specified Pkg-Description: for assembling and searching pyrophosphate sequence data Simple tools for assembling and searching high-density picolitre pyrophosphate sequence data. -Depends: figaro +Recommends: figaro Homepage: http://amos.sourceforge.net/Figaro/Figaro.html License: Artistic Pkg-Description: novel vector trimming software @@ -1387,7 +1387,7 @@ Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/) -Depends: mirbase +Recommends: mirbase Homepage: http://microrna.sanger.ac.uk/ License: Public Domain WNPP: 420938 @@ -1410,7 +1410,7 @@ It is possible that mirbase will not be a package from the main archive, but will be autogenerated as part of a larger data packaging effort. -Depends: elph +Recommends: elph Homepage: http://www.cbcb.umd.edu/software/ELPH/ License: Artistic Pkg-Description: motif finder that can find ribosome binding sites, exon splicing enhancers, or regulatory sites @@ -1428,7 +1428,7 @@ http://www.cbcb.umd.edu/software/SeeEse/index.html . Note: Other sequence analysis tools (http://www.cbcb.umd.edu/software/) -Depends: repeatfinder +Recommends: repeatfinder Homepage: http://www.cbcb.umd.edu/software/RepeatFinder/ License: Artistic Pkg-Description: finding repetitive sequences complete and draft genomes @@ -1442,7 +1442,7 @@ Kurtz's REPuter. Note: Other sequence analysis tools (http://www.cbcb.umd.edu/software/) -Depends: reputer +Recommends: reputer Homepage: http://citeseer.ist.psu.edu/kurtz95reputer.html License: to be clarified Pkg-Description: fast computation of maximal repeats in complete genomes @@ -1450,7 +1450,7 @@ palindromes in entire genomes very efficiently. Note: Download site (temporarily) not available - try to contact author -Depends: transtermhp +Recommends: transtermhp Homepage: http://transterm.cbcb.umd.edu/index.php License: Free Pkg-Description: finds rho-independent transcription terminators in bacterial genomes @@ -1463,7 +1463,7 @@ relationship to DNA uptake. Genome Biology 8:R22 (2007). Note: Other sequence analysis tools (http://www.cbcb.umd.edu/software/) -Depends: patman +Recommends: patman Homepage: http://bioinf.eva.mpg.de/patman/ License: GPL-2+ WNPP: 482555 @@ -1473,7 +1473,7 @@ for approximate matches. It is optimized for searching for many small pattern at the same time, for example microarray probes. -Depends: uniprime +Recommends: uniprime Homepage: http://code.google.com/p/uniprime/ License: GPL-3+ Responsible: Charles Plessy <[email protected]> @@ -1489,7 +1489,7 @@ generates successful cross-species primers that take into account the biological aspects of the PCR. -Depends: genetrack +Recommends: genetrack Homepage: http://sysbio.bx.psu.edu/genetrack.html License: MIT Responsible: Charles Plessy <[email protected]> @@ -1499,7 +1499,7 @@ analyze data obtained via high-throughput rapid sequencing platforms such as the 454 and Solexa as well as tiling array data based on various platforms. -Depends: operondb +Recommends: operondb Homepage: http://www.cbcb.umd.edu/cgi-bin/operons/operons.cgi License: to be clarified Pkg-Description: detect and analyze conserved gene pairs @@ -1528,7 +1528,7 @@ no info about license or downloadable code found, but tried to contact authors. -Depends: trnascan-se +Recommends: trnascan-se Homepage: http://lowelab.ucsc.edu/tRNAscan-SE/ License: GPL Pkg-Description: program for improved detection of transfer RNA genes in genomic sequence @@ -1544,7 +1544,7 @@ homologues such as selenocysteine tRNAs, tRNA-derived repetitive elements and tRNA pseudogenes. -Depends: beast-mcmc +Recommends: beast-mcmc Homepage: http://beast.bio.ed.ac.uk/ License: LGPL Pkg-Description: Bayesian MCMC analysis of molecular sequences @@ -1564,7 +1564,7 @@ There is a Debian package beast which is completely unrelated to this project. -Depends: artemis +Recommends: artemis Homepage: http://www.sanger.ac.uk/Software/Artemis/ License: GPL 2+ Responsible: BioLinux - Stewart Houten <[email protected]> @@ -1579,7 +1579,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: srf +Recommends: srf Homepage: http://srf.sourceforge.net/ License: Apache License V2.0 WNPP: 489983 @@ -1600,7 +1600,7 @@ This splits up into a library package which reads the format and a doc package which documents to format. -Depends: alien-hunter +Recommends: alien-hunter Homepage: http://www.sanger.ac.uk/Software/analysis/alien_hunter/ License: GPL Pkg-Description: Interpolated Variable Order Motifs for identification of horizontally acquired DNA @@ -1627,7 +1627,7 @@ So stripping the copy of BioJava from the source package seem to be a good idea. -Depends: act +Recommends: act Homepage: http://www.sanger.ac.uk/Software/ACT/ License: GPL Pkg-URL: http://nebc.nox.ac.uk/bio-linux/dists/unstable/bio-linux/binary-i386/ @@ -1649,7 +1649,9 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: acedb +Recommends: acedb-other-dotter, acedb-other-belvu + +Recommends: acedb-other Homepage: http://www.acedb.org/ License: GPL / LGPL Language: C, C++ @@ -1685,7 +1687,7 @@ this is probably also not for us except somebody has real interest and volunteers to clarify the license. -Depends: cdna-db +Recommends: cdna-db Homepage: http://www.sanger.ac.uk/Software/analysis/cdna_db/ License: Artistic Pkg-Description: quality-control checking of finished cDNA clone sequences @@ -1712,7 +1714,7 @@ dump cDNA clones sequences (such as those that passed the QC checking) from the cdna_db. -Depends: das-proserver +Recommends: das-proserver Homepage: http://www.sanger.ac.uk/Software/analysis/proserver/ License: Same as Perl Pkg-Description: lightweight Distributed Annotation System (DAS) server @@ -1749,7 +1751,7 @@ last years we have also seen growing acceptance in the protein sequence and structure communities. -Depends: spice +Recommends: spice Homepage: http://www.efamily.org.uk/software/dasclients/spice/ License: GPL Pkg-Description: Distributed Annotation System (DAS) client @@ -1763,7 +1765,7 @@ possible to add new annotations to SPICE, and to compare them with the already available information. -Depends: decipher +Recommends: decipher Homepage: http://www.sanger.ac.uk/Software/analysis/decipher/ License: To be clarified Pkg-Description: tracks duplications and deletions of DNA in patients @@ -1775,7 +1777,7 @@ of these conditions. DECIPHER makes use of DAS technology to integrate with Ensembl, the world's leading genome browser. -Depends: est-db +Recommends: est-db Homepage: http://www.sanger.ac.uk/Software/analysis/est_db/ License: Artistic Pkg-Description: Software suite for expressed sequence tag (EST) sequencing @@ -1806,7 +1808,7 @@ available free of charge, and, where possible, similarly open-licensed components have been used in its development. -Depends: finex +Recommends: finex Homepage: http://www.sanger.ac.uk/Software/analysis/finex/ License: To be clarified Pkg-Description: sequence homology searching @@ -1817,7 +1819,7 @@ Please note FINEX is no longer supported but is available for download. -Depends: hexamer +Recommends: hexamer Homepage: http://www.sanger.ac.uk/Software/analysis/hexamer/ License: GPL Pkg-Description: scan DNA sequences to look for likely coding regions @@ -1844,7 +1846,7 @@ converted to 'c'. The output of hexamer is in General Feature Format (GFF) format. -Depends: logomat-m +Recommends: logomat-m Homepage: http://www.sanger.ac.uk/Software/analysis/logomat-m/ License: As Perl itself Pkg-Description: visualize central aspects of Profile Hidden Markov Models (pHMMs) @@ -1865,7 +1867,7 @@ Rahmann S BMC Bioinformatics. 2004;5;7. PMID: 14736340 DOI: 10.1186/1471-2105-5-7 -Depends: coot +Recommends: coot Homepage: http://www.ysbl.york.ac.uk/~emsley/coot/ License: GPL Pkg-Description: protein structure model-building, -completion, -validation @@ -1874,7 +1876,7 @@ refinement, manual rotation/translation, rigid-body fitting, ligand search, solvation, mutations, rotamers, Ramachandran plots... -Depends: r-ape +Recommends: r-ape Homepage: http://ape.mpl.ird.fr/ License: GPL Responsible: BioLinux - Stewart Houten <[email protected]> @@ -1887,7 +1889,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: caftools +Recommends: caftools Homepage: http://www.sanger.ac.uk/Software/formats/CAF/userguide.shtml License: Free for non-commercial purposes Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -1911,7 +1913,7 @@ Format) or GAP4. This package includes tools to convert assemblies from Newbler's ace format for loading into a gap4 assembly. -Depends: roche454ace2caf +Recommends: roche454ace2caf Homepage: http://genome.imb-jena.de/software/roche454ace2caf/ License: not specified Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -1938,7 +1940,7 @@ Format) or GAP4. This package includes tools to convert assemblies from Newbler's ace format for loading into a gap4 assembly. -Depends: big-blast +Recommends: big-blast Homepage: ftp://ftp.sanger.ac.uk/pub/pathogens/software/artemis/extra/big_blast.pl License: not specified Responsible: BioLinux - Stewart Houten <[email protected]> @@ -1950,7 +1952,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: blixem +Recommends: blixem Homepage: http://bioinformatics.abc.hu/tothg/biocomp/other/Blixem.html License: not specified Responsible: BioLinux - Dan Swan <[email protected]> @@ -1963,7 +1965,7 @@ This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: cap3 +Recommends: cap3 Homepage: http://genome.cs.mtu.edu/cap/cap3.html License: free for governmental agency or a non-profit educational institution Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -1987,7 +1989,7 @@ convenience to Bio-Linux users so that the files are placed in locations consistent with the Bio-Linux setup. -Depends: cd-hit +Recommends: cd-hit Homepage: http://www.bioinformatics.org/cd-hit/ License: to be clarified Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2021,7 +2023,7 @@ at http://www.clcbio.com/index.php?id=28 but this seems to be only "free as in beer" binary download - so this is not for us ... -Depends: coalesce +Recommends: coalesce Homepage: http://evolution.gs.washington.edu/lamarc/coalesce.html License: not specified Responsible: BioLinux - Nathan S Haigh <[email protected]> @@ -2046,7 +2048,7 @@ at http://www.dendroscope.org but this project has only a "free as in beer" binary download - so this is not for us ... -Depends: dotter +Recommends: dotter Homepage: http://www.cgb.ki.se/cgb/groups/sonnhammer/Dotter.html License: to be clarified Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2077,7 +2079,7 @@ Homepage is currently unavailable but the source might be obtainable from freebsd.org. -Depends: dotur +Recommends: dotur Homepage: http://schloss.micro.umass.edu/software/dotur.html License: GPL Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2094,7 +2096,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: estferret +Recommends: estferret Homepage: http://legr.liv.ac.uk/EST-ferret/index.htm License: to be clarified Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2142,7 +2144,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: estscan +Recommends: estscan Homepage: http://estscan.sourceforge.net/ License: free Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2176,7 +2178,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: fasta +Recommends: fasta Homepage: http://www.ebi.ac.uk/Tools/fasta/ License: no inclusion into commercial product Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2198,7 +2200,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: fluctuate +Recommends: fluctuate Homepage: http://evolution.gs.washington.edu/lamarc/fluctuate.html License: not specified Responsible: BioLinux - Nathan S Haigh <[email protected]> @@ -2219,7 +2221,7 @@ BioLinux distribution http://envgen.nox.ac.uk/biolinux.html contains a package. -Depends: forester +Recommends: forester Homepage: http://sourceforge.net/projects/forester-atv/ License: LGPL Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2232,7 +2234,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: r-happy +Recommends: r-happy Homepage: http://www.well.ox.ac.uk/happy/ License: GPL Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2276,7 +2278,7 @@ version available at http://www.well.ox.ac.uk/happy/happyR.shtml which is entirely free. -Depends: jalview +Recommends: jalview Homepage: http://www.jalview.org/ License: GPL WNPP: 507436 @@ -2288,7 +2290,7 @@ the Pfam protein domain database) but is available as a general purpose alignment editor. -Depends: lamarc +Recommends: lamarc Homepage: http://evolution.gs.washington.edu/lamarc/ License: Apache V2.0 Responsible: BioLinux - Nathan S Haigh <[email protected]> @@ -2306,7 +2308,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: lucy +Recommends: lucy Homepage: http://rcc.uga.edu/applications/bioinformatics/lucy.html License: GPL Responsible: BioLinux - Dan Swan <[email protected]> @@ -2333,7 +2335,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: maxd +Recommends: maxd Homepage: http://www.bioinf.man.ac.uk/microarray/maxd/ License: Artistic Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2352,7 +2354,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: mesquite +Recommends: mesquite Homepage: http://mesquiteproject.org/mesquite/mesquite.html License: LGPL Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2380,7 +2382,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: migrate +Recommends: migrate Homepage: http://popgen.scs.fsu.edu/Migrate-n.html License: to be clarified Responsible: BioLinux - Nathan S Haigh <[email protected]> @@ -2403,7 +2405,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: mrbayes +Recommends: mrbayes Homepage: http://mrbayes.csit.fsu.edu/ License: GPL Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2426,7 +2428,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: msatfinder +Recommends: msatfinder Homepage: http://www.genomics.ceh.ac.uk/msatfinder/ License: GPL Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2442,7 +2444,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: mview +Recommends: mview Homepage: http://bio-mview.sourceforge.net/ License: GPL Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2459,7 +2461,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: oligoarrayaux +Recommends: oligoarrayaux Homepage: http://dinamelt.bioinfo.rpi.edu/OligoArrayAux.php License: non-free (fre academical use) Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2486,7 +2488,7 @@ this and so it might make soem sense to list it here - further investigation is needed. -Depends: omegamap +Recommends: omegamap Homepage: http://www.danielwilson.me.uk/software.html License: to be clarified Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2507,7 +2509,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: paml +Recommends: paml Homepage: http://abacus.gene.ucl.ac.uk/software/paml.html License: not specified Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2524,7 +2526,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: partigene +Recommends: partigene Homepage: http://www.nematodes.org/bioinformatics/PartiGene/ License: GPL Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2539,7 +2541,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: pfaat +Recommends: pfaat Homepage: http://pfaat.sourceforge.net/ License: GPL Responsible: BioLinux - Dan Swan <[email protected]> @@ -2552,7 +2554,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: pftools +Recommends: pftools Homepage: http://www.isrec.isb-sib.ch/profile/profile.html License: not specified Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2564,7 +2566,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: prank +Recommends: prank Homepage: http://www.ebi.ac.uk/goldman-srv/prank/ License: GPL (except two algorithms) Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2605,7 +2607,7 @@ project has only a "free as in beer" binary download - so this is not for us ... -Depends: prot4est +Recommends: prot4est Homepage: http://xyala.cap.ed.ac.uk/bioinformatics/prot4EST/index.shtml License: GPL Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2618,7 +2620,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: qtlcart +Recommends: qtlcart Homepage: http://statgen.ncsu.edu/qtlcart/ License: GPL Responsible: BioLinux - Dan Swan <[email protected]> @@ -2632,7 +2634,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: rbs-finder +Recommends: rbs-finder Homepage: http://www.genomics.jhu.edu/RBSfinder/ License: not specified Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2650,7 +2652,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: recombine +Recommends: recombine Homepage: http://evolution.genetics.washington.edu/lamarc/recombine.html License: not specified Responsible: BioLinux - Nathan S Haigh <[email protected]> @@ -2672,7 +2674,7 @@ BioLinux distribution http://envgen.nox.ac.uk/biolinux.html contains a package. -Depends: splitstree +Recommends: splitstree Homepage: http://www-ab.informatik.uni-tuebingen.de/software/splitstree3/welcome.html License: to be clarified Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2705,7 +2707,7 @@ http://envgen.nox.ac.uk/biolinux.html -Depends: taverna +Recommends: taverna Homepage: http://taverna.sourceforge.net/ License: LGPL Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2731,7 +2733,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: taxinspector +Recommends: taxinspector Homepage: http://nebc.nox.ac.uk/projects/taxinspector.html License: Artistic + other free licenses Responsible: BioLinux - Tim Booth <[email protected]> @@ -2743,7 +2745,7 @@ Remark: This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: tetra +Recommends: tetra Homepage: http://www.megx.net/tetra/ License: free academic Responsible: BioLinux - Stewart Houten <[email protected]> @@ -2763,7 +2765,7 @@ This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: trace2dbest +Recommends: trace2dbest Homepage: http://www.nematodes.org/bioinformatics/trace2dbEST/ License: GPL Responsible: BioLinux - Bela Tiwari <[email protected]> @@ -2788,7 +2790,7 @@ This package is included into BioLinux distribution http://envgen.nox.ac.uk/biolinux.html -Depends: profit +Recommends: profit Homepage: http://www.bioinf.org.uk/software/profit/ License: non-free Responsible: Steffen Moeller <[email protected]> @@ -2801,7 +2803,7 @@ Remark: The authors need to change the license, still. The debian folder should appear in Debian Med Svn in some near future. -Depends: kempbasu +Recommends: kempbasu Homepage: http://code.google.com/p/kempbasu/ License: GPL Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/kempbasu/trunk/ @@ -2816,7 +2818,7 @@ They provide two programs: kemp for the frequentist test and basu for the Bayesian test, and some auxiliary scripts. -Depends: samtools +Recommends: samtools Homepage: http://samtools.sourceforge.net License: MIT WNPP: 540453 @@ -2829,7 +2831,7 @@ sorting, merging and indexing, and allows to retrieve reads in any regions swiftly. -Depends: fastx-toolkit +Recommends: fastx-toolkit Homepage: http://hannonlab.cshl.edu/fastx_toolkit License: AGPL / MIT Responsible: Assaf Gordon <[email protected]> @@ -2849,7 +2851,7 @@ . http://hannonlab.cshl.edu/crosstab/ -Depends: grogui +Recommends: grogui Homepage: http://www.kde-apps.org/content/show.php?content=47665 License: GPL Pkg-Description: graphical user interface for popular molecular dynamics package GROMACS @@ -2862,7 +2864,7 @@ 7. MDP Writer section to easily create your mdp files. 8. File icons based on their types. -Depends: rosetta +Recommends: rosetta Homepage: http://www.rosettacommons.org/ License: not redistributable, not unlikely to change Pkg-Description: Protein-folding, -docking, ..? @@ -2875,7 +2877,7 @@ the source or binaries. Nevertheless, Debian-Med could possibly offer an easy preparation of Debian packages. -Depends: Obo-Edit +Recommends: obo-edit Homepage: http://www.geneontology.org License: something free Pkg-Description: editor for biological ontologies _______________________________________________ Blends-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/blends-commit
