Biocluster Applications: Difference between revisions
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!Version | !Version | ||
|- | |- | ||
| | |454 | ||
| | |2.6, 2.7, 2.8 | ||
|- | |- | ||
| | |AbundantOTU+ | ||
|0. | |0.91b | ||
|- | |- | ||
| | |abyss | ||
| | |1.2.5, 1.3.3, 1.3.4 | ||
|- | |- | ||
| | |afni | ||
| | |2011_12_21_2014 | ||
|- | |- | ||
| | |allpathslg | ||
| | |42911 | ||
|- | |- | ||
| | |amos | ||
| | |3.1.0 | ||
|- | |- | ||
| | |AmpliconNoise | ||
| | |1.2.7 | ||
|- | |- | ||
| | |art | ||
| | |20110922 | ||
|- | |- | ||
| | |artemis | ||
|0 | |14.0 | ||
|- | |- | ||
| | |augustus | ||
| | |2.6.1 | ||
|- | |- | ||
| | |b2g4pipe | ||
| | |2.5 | ||
|- | |- | ||
| | |babraham | ||
| | |bioinformatics | ||
|- | |- | ||
| | |bali-phy | ||
| | |2.1.1 | ||
|- | |- | ||
| | |bam2fastq | ||
| | |1.1.0 | ||
|- | |- | ||
| | |bamtools | ||
|0. | |0.9.0 | ||
|- | |- | ||
| | |bcbio-nextgen | ||
|0. | |0.6.5 | ||
|- | |- | ||
| | |bedtools | ||
|0. | |2.10.0, 2.10.1, 2.17.0 | ||
|- | |- | ||
| | |biodatabase | ||
|0 | |1.0 | ||
|- | |- | ||
| | |biopieces | ||
|0. | |0.48 | ||
|- | |- | ||
| | |blast+ | ||
| | |2.2.25+, 2.2.28+ | ||
|- | |- | ||
| | |blast-intel | ||
| | |2.2.26 | ||
|- | |- | ||
| | |blast | ||
| | |2.2.25, 2.2.26 | ||
|- | |- | ||
| | |blast2go | ||
| | |2.5 | ||
|- | |- | ||
| | |blat | ||
|0. | |0.34 | ||
|- | |- | ||
| | |boost-intel | ||
| | |1.54 | ||
|- | |- | ||
| | |boost | ||
| | |1.54 | ||
|- | |- | ||
| | |bowtie | ||
|0. | |0.12.8, 0.12.9, 1.0.0 | ||
|- | |- | ||
| | |bowtie2 | ||
|0. | |2.0.0-beta6, 2.0.2, 2.0.5, 2.1.0 | ||
|- | |- | ||
| | |breseq | ||
|0. | |0.24 | ||
|- | |- | ||
| | |bwa | ||
|0. | |0.5.9, 0.7.5a | ||
|- | |- | ||
| | |cafe | ||
| | |2.2, 3.0 | ||
|- | |- | ||
| | |casava | ||
| | |1.8.2 | ||
|- | |- | ||
| | |cd-hit | ||
| | |4.6, 4.6.1 | ||
|- | |- | ||
| | |cdbfasta | ||
|0. | |0.99 | ||
|- | |- | ||
| | |cegma | ||
| | |v2.4.010312 | ||
|- | |- | ||
| | |chance | ||
|0 | |1.0 | ||
|- | |- | ||
| | |chimera | ||
| | |1.5.3, 1.6.2 | ||
|- | |- | ||
| | |cisgenome | ||
|0 | |2.0 | ||
|- | |- | ||
| | |ClonalFrame | ||
| | |1.2 | ||
|- | |- | ||
| | |clustalo | ||
| | |1.2.0 | ||
|- | |- | ||
| | |clustalw | ||
| | |2.1 | ||
|- | |- | ||
| | |cufflinks | ||
|0. | |1.1.0, 1.3.0, 2.0.2, 2.1.1 | ||
|- | |- | ||
| | |cutadapt | ||
| | |1.2 | ||
|- | |- | ||
| | |cytoscape | ||
| | |2.8.1, 2.8.3 | ||
|- | |- | ||
| | |EagleView | ||
| | |2.2 | ||
|- | |- | ||
| | |efiest | ||
| | |alpha, devel | ||
|- | |- | ||
| | |EMBOSS | ||
| | |6.5.7 | ||
|- | |- | ||
| | |erange | ||
| | |3.2.1 | ||
|- | |- | ||
| | |estscan | ||
|0. | |3.0.3 | ||
|- | |- | ||
| | |fasta | ||
| | |36.3.5d | ||
|- | |- | ||
| | |fasta_splitter | ||
| | |1 | ||
|- | |- | ||
| | |fastqc | ||
|0. | |0.10.1 | ||
|- | |- | ||
| | |fastsimcoal2 | ||
| | |1.1.1 | ||
|- | |- | ||
| | |fasttree | ||
| | |2.1.7 | ||
|- | |- | ||
| | |fastx_toolkit | ||
|0. | |0.0.13 | ||
|- | |- | ||
| | |findpeaks | ||
| | |3.1.9.2 | ||
|- | |- | ||
| | |freebayes | ||
|0. | |0.9.6 | ||
|- | |- | ||
| | |gatk | ||
| | |1.6-5, 1.6-13, 2.5-2, 2.6-4 | ||
|- | |- | ||
| | |gcc | ||
| | |4.8.1 | ||
|- | |- | ||
| | |geneid | ||
|0 | |1.0 | ||
|- | |- | ||
| | |genomer | ||
|0. | |0.0.10 | ||
|- | |- | ||
| | |genometools | ||
| | |1.5.1 | ||
|- | |- | ||
| | |gff | ||
| | |2.1 | ||
|- | |- | ||
| | |glimmer | ||
| | |3.02 | ||
|- | |- | ||
| | |gmap | ||
| | |2011-09-14, 2013-03-31 | ||
|- | |- | ||
| | |gmes | ||
| | |v2.3e | ||
|- | |- | ||
| | |gnuplot | ||
| | |4.6.3 | ||
|- | |- | ||
| | |graphviz | ||
| | |2.32.0 | ||
|- | |- | ||
| | |gsl | ||
| | |1.16 | ||
|- | |- | ||
| | |hmmer-mpi | ||
|0. | |2.32-MPI-0.92 | ||
|- | |- | ||
| | |hmmer | ||
| | |2.3.2, 3.0 | ||
|- | |- | ||
| | |htseq | ||
|0. | |0.5.4 | ||
|- | |- | ||
| | |icc | ||
| | |2013.5.192 | ||
|- | |- | ||
| | |idba-ud | ||
| | |1.1.0 | ||
|- | |- | ||
| | |IGV | ||
| | |2.1.24 | ||
|- | |- | ||
| | |IGVTools | ||
| | |2.1.24 | ||
|- | |- | ||
| | |IMAGE | ||
| | |2.33 | ||
|- | |- | ||
| | |ImageMagick | ||
| | |6.7.8-9 | ||
|- | |- | ||
| | |infernal | ||
| | |1.1rc1, 1.1rc2 | ||
|- | |- | ||
| | |inparanoid | ||
| | |4.1 | ||
|- | |- | ||
| | |iprscan | ||
| | |4.8, 5.44, 5.45 | ||
|- | |- | ||
| | |java | ||
| | |1.6.0_41, 1.7.0_06-i386, 1.7.0_07 | ||
|- | |- | ||
| | |jellyfish | ||
| | |1.1.6, 1.1.11 | ||
|- | |- | ||
| | |khmer | ||
| | |2013-05-06 | ||
|- | |- | ||
| | |kmergenie | ||
| | |1.5854 | ||
|- | |- | ||
| | |krona | ||
| | |2.2 | ||
|- | |- | ||
| | |lamarc | ||
| | |2.1.8 | ||
|- | |- | ||
| | |last | ||
| | |278 | ||
|- | |- | ||
| | |lastz | ||
| | |1.02.00 | ||
|- | |- | ||
| | |libstree | ||
|0. | |0.4.2 | ||
|- | |- | ||
| | |LR-TRIRLS | ||
| | |20060531 | ||
|- | |- | ||
| | |lua | ||
| | |5.1.4, 5.2.2 | ||
|- | |- | ||
| | |MACS | ||
|0. | |1.4.2, 2.0.10 | ||
|- | |- | ||
| | |mafft | ||
| | |6.953 | ||
|- | |- | ||
| | |matlab-runtime | ||
| | |r2012b | ||
|- | |- | ||
| | |matlab | ||
|0. | |7.11.0.584 | ||
|- | |- | ||
| | |mcl | ||
| | |12-068 | ||
|- | |- | ||
| | |MEGAN | ||
| | |4.70.4, 5.1.0 | ||
|- | |- | ||
| | |meme | ||
| | |4.9.0 | ||
|- | |- | ||
| | |MetaGeneMark | ||
| | |2010 | ||
|- | |- | ||
| | |metAMOS | ||
| | |1.2 | ||
|- | |- | ||
| | |MetaVelvet | ||
| | |1.2.02, 1.2.02-kmer245 | ||
|- | |- | ||
| | |mfinder | ||
| | |1.2 | ||
|- | |- | ||
| | |mira | ||
| | |3.2.1 | ||
|- | |- | ||
| | |MOCAT | ||
| | |1.1 | ||
|- | |- | ||
| | |ModalClust | ||
|0. | |0.2, 0.3 | ||
|- | |- | ||
| | |mothur | ||
|0. | |1.8, 1.28.0, 1.31.2, 1.32.0, 1.32.1 | ||
|- | |- | ||
| | |mpich | ||
|0. | |3.0.4 | ||
|- | |- | ||
| | |mpich2 | ||
| | |1.4.1p1, 1.5 | ||
|- | |- | ||
| | |msort | ||
|0 | |1.0 | ||
|- | |- | ||
| | |MUMmer | ||
| | |3.23 | ||
|- | |- | ||
| | |muscle | ||
| | |3.8.31 | ||
|- | |- | ||
| | |novocraft | ||
| | |2.08, 2.08.02, 2.08.03, 3.00.01, 3.00.02, 3.00.05, 3.02 | ||
|- | |- | ||
| | |oasas-kmer245 | ||
|0. | |0.2.8 | ||
|- | |- | ||
| | |oasas | ||
|0. | |0.2.8 | ||
|- | |- | ||
| | |OLB | ||
| | |1.9.4 | ||
|- | |- | ||
| | |openmpi-intel | ||
| | |1.6.3 | ||
|- | |- | ||
| | |openmpi | ||
| | |1.4.3, 1.6.3 | ||
|- | |- | ||
| | |orthomcl | ||
|0. | |2.0.2, 2.0.7 | ||
|- | |- | ||
| | |paml | ||
| | |4.4 | ||
|- | |- | ||
| | |parallel | ||
| | |20121122 | ||
|- | |- | ||
| | |pathway-tools | ||
| | |16.5 | ||
|- | |- | ||
| | |PBJelly | ||
| | |12.9.14 | ||
|- | |- | ||
| | |peaksplitter | ||
|0 | |1.0 | ||
|- | |- | ||
| | |perfsuite | ||
|0. | |1.0.0 | ||
|- | |- | ||
| | |perl | ||
| | |5.16.1 | ||
|- | |- | ||
| | |pfamscan | ||
|0 | |1.0 | ||
|- | |- | ||
| | |phred | ||
|0. | |0.020425.c | ||
|- | |- | ||
| | |phylip | ||
| | |3.69 | ||
|- | |- | ||
| | |phymmbl | ||
|0 | |4.0 | ||
|- | |- | ||
| | |picard-tools | ||
| | |1.34, 1.73, 1.90 | ||
|- | |- | ||
| | |polyphen | ||
| | |2.2.2 | ||
|- | |- | ||
| | |pplacer | ||
|0. | |1.0, 1.1 | ||
|- | |- | ||
| | |prank | ||
| | |121002 | ||
|- | |- | ||
| | |prodigal | ||
|0. | |2.0, 2.2 | ||
|- | |- | ||
| | |python | ||
| | |2.6.6, 2.7.3(default), 2.7.3-sqlite, 2.7.5-galaxy, 3.2.3 | ||
|- | |- | ||
| | |qiime | ||
|0. | |1.3.0, 1.5.0, 1.6.0, 1.7.0 | ||
|- | |- | ||
| | |quake | ||
|0. | |0.3.4 | ||
|- | |- | ||
| | |quast | ||
| | |2.2 | ||
|- | |- | ||
| | |quest | ||
| | |alpha, devel | ||
|- | |- | ||
| | |R | ||
|0. | |2.15.0, 2.15.1, 2.15.2, 3.0.0(default), 3.0.2 | ||
|- | |- | ||
| | |RAxML | ||
| | |7.3.0 | ||
|- | |- | ||
| | |ray | ||
| | |2.20, 2.30 | ||
|- | |- | ||
| | |rdp_classifier | ||
| | |2.5 | ||
|- | |- | ||
| | |rdxplorer | ||
| | |3.2 | ||
|- | |- | ||
| | |repeatmasker | ||
| | |3.28 | ||
|- | |- | ||
| | |rockhopper | ||
| | |1.2 | ||
|- | |- | ||
| | |rsa-tools | ||
| | |2012-10-09 | ||
|- | |- | ||
|rstudio | |rstudio | ||
|0.97.312 | |0.97.312 | ||
|- | |- | ||
| | |ruby | ||
| | |1.9.3 | ||
|- | |- | ||
| | |samtools | ||
|0. | |0.1.16 | ||
|- | |- | ||
| | |samtools | ||
|0. | |0.1.18 | ||
|- | |- | ||
| | |samtools | ||
|0. | |0.1.19 | ||
|- | |- | ||
| | |sam_comp | ||
|0. | |0.7 | ||
|- | |- | ||
| | |SICER | ||
| | |1.1 | ||
|- | |- | ||
| | |signalp | ||
| | |4.1 | ||
|- | |- | ||
| | |smrtanalysis | ||
| | |1.4.0 | ||
|- | |- | ||
| | |smrtanalysis | ||
|0. | |2.0.1 | ||
|- | |- | ||
| | |SnpEff | ||
| | |3.2 | ||
|- | |- | ||
| | |SnpEff | ||
| | |3.3e | ||
|- | |- | ||
| | |SOAP2 | ||
| | |2.2 | ||
|- | |- | ||
| | |SOAPdenovo-Trans | ||
| | |1.02 | ||
|- | |- | ||
| | |SOAPdenovo | ||
| | |2.04 | ||
|- | |- | ||
| | |SOAPdenovo2 | ||
| | |r240 | ||
|- | |- | ||
| | |SOAPec | ||
| | |2.01 | ||
|- | |- | ||
| | |SOAPec | ||
| | |2.02 | ||
|- | |- | ||
| | |SOAPErrorCorrection | ||
|0. | |0.04 | ||
|- | |- | ||
| | |SOAPGapCloser | ||
| | |1.12 | ||
|- | |- | ||
| | |SOAPprepare | ||
|0. | |0.1 | ||
|- | |- | ||
| | |speciateit | ||
| | |184(default) | ||
|- | |- | ||
| | |speciateit | ||
| | |template | ||
|- | |- | ||
| | |speciatetest | ||
| | |184 | ||
|- | |- | ||
| | |speciate_it | ||
| | |184(default) | ||
|- | |- | ||
| | |sratoolkit | ||
| | |2.1.16 | ||
|- | |- | ||
| | |srna-tools | ||
| | |20130118 | ||
|- | |- | ||
| | |ssaha2 | ||
| | |2.5.5 | ||
|- | |- | ||
| | |stacks | ||
|0. | |0.9996 | ||
|- | |- | ||
| | |stacks | ||
|0. | |0.99994 | ||
|- | |- | ||
| | |structure | ||
| | |2.3.4 | ||
|- | |- | ||
| | |subread | ||
| | |3.1.6 | ||
|- | |- | ||
| | |supfam | ||
| | |1.75 | ||
|- | |- | ||
| | |tabix | ||
|0. | |0.2.6 | ||
|- | |- | ||
| | |tcoffee | ||
| | |10-r1613 | ||
|- | |- | ||
| | |tmhmm | ||
|0 | |2.0 | ||
|- | |- | ||
| | |tophat | ||
| | |1.4.1 | ||
|- | |- | ||
| | |tophat2 | ||
|0. | |2.0.4 | ||
|- | |- | ||
| | |tophat2 | ||
|0. | |2.0.5 | ||
|- | |- | ||
| | |tophat2 | ||
|0. | |2.0.6 | ||
|- | |- | ||
| | |tophat2 | ||
|0. | |2.0.7 | ||
|- | |- | ||
| | |tophat2 | ||
|0. | |2.0.8 | ||
|- | |- | ||
| | |tophat2 | ||
|0. | |2.0.10(default) | ||
|- | |- | ||
| | |treemix | ||
| | |1.12 | ||
|- | |- | ||
| | |trf | ||
| | |4.04 | ||
|- | |- | ||
| | |trimmomatic | ||
|0. | |0.22 | ||
|- | |- | ||
| | |trimmomatic | ||
|0. | |0.27 | ||
|- | |- | ||
| | |trimmomatic | ||
|0. | |0.30 | ||
|- | |- | ||
| | |trinityrnaseq-intel | ||
| | |r2013-02-25 | ||
|- | |- | ||
| | |trinityrnaseq | ||
| | |r2012-06-08 | ||
|- | |- | ||
| | |trinityrnaseq | ||
| | |r2013-02-25 | ||
|- | |- | ||
| | |trinityrnaseq | ||
| | |r2013-08-14 | ||
|- | |- | ||
| | |trinotate | ||
| | |trinotate_r20130826 | ||
|- | |- | ||
| | |truesight | ||
|0. | |0.06 | ||
|- | |- | ||
| | |uchime | ||
| | |4.2.40 | ||
|- | |- | ||
| | |usearch | ||
|0. | |6.0.307 | ||
|- | |- | ||
| | |usearch | ||
| | |6.1.544 | ||
|- | |- | ||
| | |usearch | ||
|0. | |7.0.959 | ||
|- | |- | ||
| | |USeq | ||
| | |8.5.1 | ||
|- | |- | ||
| | |vcftools | ||
|0. | |0.1.7 | ||
|- | |- | ||
| | |vcftools | ||
|0. | |0.1.11 | ||
|- | |- | ||
| | |velvet-kmer245 | ||
| | |1.2.10 | ||
|- | |- | ||
| | |velvet | ||
| | |1.1.04 | ||
|- | |- | ||
| | |velvet | ||
| | |1.2.08 | ||
|- | |- | ||
| | |velvet | ||
| | |1.2.10 | ||
|- | |- | ||
| | |velvetOptimiser | ||
| | |2.2.5 | ||
|- | |- | ||
| | |wessim | ||
|0 | |1.0 | ||
|- | |- | ||
| | |wgs | ||
|0 | |7.0 | ||
|- | |- | ||
| | |wise | ||
| | |2.2.3-rc7 | ||
|} | |} | ||
Revision as of 00:19, 16 February 2014
| Application | Version |
|---|---|
| 454 | 2.6, 2.7, 2.8 |
| AbundantOTU+ | 0.91b |
| abyss | 1.2.5, 1.3.3, 1.3.4 |
| afni | 2011_12_21_2014 |
| allpathslg | 42911 |
| amos | 3.1.0 |
| AmpliconNoise | 1.2.7 |
| art | 20110922 |
| artemis | 14.0 |
| augustus | 2.6.1 |
| b2g4pipe | 2.5 |
| babraham | bioinformatics |
| bali-phy | 2.1.1 |
| bam2fastq | 1.1.0 |
| bamtools | 0.9.0 |
| bcbio-nextgen | 0.6.5 |
| bedtools | 2.10.0, 2.10.1, 2.17.0 |
| biodatabase | 1.0 |
| biopieces | 0.48 |
| blast+ | 2.2.25+, 2.2.28+ |
| blast-intel | 2.2.26 |
| blast | 2.2.25, 2.2.26 |
| blast2go | 2.5 |
| blat | 0.34 |
| boost-intel | 1.54 |
| boost | 1.54 |
| bowtie | 0.12.8, 0.12.9, 1.0.0 |
| bowtie2 | 2.0.0-beta6, 2.0.2, 2.0.5, 2.1.0 |
| breseq | 0.24 |
| bwa | 0.5.9, 0.7.5a |
| cafe | 2.2, 3.0 |
| casava | 1.8.2 |
| cd-hit | 4.6, 4.6.1 |
| cdbfasta | 0.99 |
| cegma | v2.4.010312 |
| chance | 1.0 |
| chimera | 1.5.3, 1.6.2 |
| cisgenome | 2.0 |
| ClonalFrame | 1.2 |
| clustalo | 1.2.0 |
| clustalw | 2.1 |
| cufflinks | 1.1.0, 1.3.0, 2.0.2, 2.1.1 |
| cutadapt | 1.2 |
| cytoscape | 2.8.1, 2.8.3 |
| EagleView | 2.2 |
| efiest | alpha, devel |
| EMBOSS | 6.5.7 |
| erange | 3.2.1 |
| estscan | 3.0.3 |
| fasta | 36.3.5d |
| fasta_splitter | 1 |
| fastqc | 0.10.1 |
| fastsimcoal2 | 1.1.1 |
| fasttree | 2.1.7 |
| fastx_toolkit | 0.0.13 |
| findpeaks | 3.1.9.2 |
| freebayes | 0.9.6 |
| gatk | 1.6-5, 1.6-13, 2.5-2, 2.6-4 |
| gcc | 4.8.1 |
| geneid | 1.0 |
| genomer | 0.0.10 |
| genometools | 1.5.1 |
| gff | 2.1 |
| glimmer | 3.02 |
| gmap | 2011-09-14, 2013-03-31 |
| gmes | v2.3e |
| gnuplot | 4.6.3 |
| graphviz | 2.32.0 |
| gsl | 1.16 |
| hmmer-mpi | 2.32-MPI-0.92 |
| hmmer | 2.3.2, 3.0 |
| htseq | 0.5.4 |
| icc | 2013.5.192 |
| idba-ud | 1.1.0 |
| IGV | 2.1.24 |
| IGVTools | 2.1.24 |
| IMAGE | 2.33 |
| ImageMagick | 6.7.8-9 |
| infernal | 1.1rc1, 1.1rc2 |
| inparanoid | 4.1 |
| iprscan | 4.8, 5.44, 5.45 |
| java | 1.6.0_41, 1.7.0_06-i386, 1.7.0_07 |
| jellyfish | 1.1.6, 1.1.11 |
| khmer | 2013-05-06 |
| kmergenie | 1.5854 |
| krona | 2.2 |
| lamarc | 2.1.8 |
| last | 278 |
| lastz | 1.02.00 |
| libstree | 0.4.2 |
| LR-TRIRLS | 20060531 |
| lua | 5.1.4, 5.2.2 |
| MACS | 1.4.2, 2.0.10 |
| mafft | 6.953 |
| matlab-runtime | r2012b |
| matlab | 7.11.0.584 |
| mcl | 12-068 |
| MEGAN | 4.70.4, 5.1.0 |
| meme | 4.9.0 |
| MetaGeneMark | 2010 |
| metAMOS | 1.2 |
| MetaVelvet | 1.2.02, 1.2.02-kmer245 |
| mfinder | 1.2 |
| mira | 3.2.1 |
| MOCAT | 1.1 |
| ModalClust | 0.2, 0.3 |
| mothur | 1.8, 1.28.0, 1.31.2, 1.32.0, 1.32.1 |
| mpich | 3.0.4 |
| mpich2 | 1.4.1p1, 1.5 |
| msort | 1.0 |
| MUMmer | 3.23 |
| muscle | 3.8.31 |
| novocraft | 2.08, 2.08.02, 2.08.03, 3.00.01, 3.00.02, 3.00.05, 3.02 |
| oasas-kmer245 | 0.2.8 |
| oasas | 0.2.8 |
| OLB | 1.9.4 |
| openmpi-intel | 1.6.3 |
| openmpi | 1.4.3, 1.6.3 |
| orthomcl | 2.0.2, 2.0.7 |
| paml | 4.4 |
| parallel | 20121122 |
| pathway-tools | 16.5 |
| PBJelly | 12.9.14 |
| peaksplitter | 1.0 |
| perfsuite | 1.0.0 |
| perl | 5.16.1 |
| pfamscan | 1.0 |
| phred | 0.020425.c |
| phylip | 3.69 |
| phymmbl | 4.0 |
| picard-tools | 1.34, 1.73, 1.90 |
| polyphen | 2.2.2 |
| pplacer | 1.0, 1.1 |
| prank | 121002 |
| prodigal | 2.0, 2.2 |
| python | 2.6.6, 2.7.3(default), 2.7.3-sqlite, 2.7.5-galaxy, 3.2.3 |
| qiime | 1.3.0, 1.5.0, 1.6.0, 1.7.0 |
| quake | 0.3.4 |
| quast | 2.2 |
| quest | alpha, devel |
| R | 2.15.0, 2.15.1, 2.15.2, 3.0.0(default), 3.0.2 |
| RAxML | 7.3.0 |
| ray | 2.20, 2.30 |
| rdp_classifier | 2.5 |
| rdxplorer | 3.2 |
| repeatmasker | 3.28 |
| rockhopper | 1.2 |
| rsa-tools | 2012-10-09 |
| rstudio | 0.97.312 |
| ruby | 1.9.3 |
| samtools | 0.1.16 |
| samtools | 0.1.18 |
| samtools | 0.1.19 |
| sam_comp | 0.7 |
| SICER | 1.1 |
| signalp | 4.1 |
| smrtanalysis | 1.4.0 |
| smrtanalysis | 2.0.1 |
| SnpEff | 3.2 |
| SnpEff | 3.3e |
| SOAP2 | 2.2 |
| SOAPdenovo-Trans | 1.02 |
| SOAPdenovo | 2.04 |
| SOAPdenovo2 | r240 |
| SOAPec | 2.01 |
| SOAPec | 2.02 |
| SOAPErrorCorrection | 0.04 |
| SOAPGapCloser | 1.12 |
| SOAPprepare | 0.1 |
| speciateit | 184(default) |
| speciateit | template |
| speciatetest | 184 |
| speciate_it | 184(default) |
| sratoolkit | 2.1.16 |
| srna-tools | 20130118 |
| ssaha2 | 2.5.5 |
| stacks | 0.9996 |
| stacks | 0.99994 |
| structure | 2.3.4 |
| subread | 3.1.6 |
| supfam | 1.75 |
| tabix | 0.2.6 |
| tcoffee | 10-r1613 |
| tmhmm | 2.0 |
| tophat | 1.4.1 |
| tophat2 | 2.0.4 |
| tophat2 | 2.0.5 |
| tophat2 | 2.0.6 |
| tophat2 | 2.0.7 |
| tophat2 | 2.0.8 |
| tophat2 | 2.0.10(default) |
| treemix | 1.12 |
| trf | 4.04 |
| trimmomatic | 0.22 |
| trimmomatic | 0.27 |
| trimmomatic | 0.30 |
| trinityrnaseq-intel | r2013-02-25 |
| trinityrnaseq | r2012-06-08 |
| trinityrnaseq | r2013-02-25 |
| trinityrnaseq | r2013-08-14 |
| trinotate | trinotate_r20130826 |
| truesight | 0.06 |
| uchime | 4.2.40 |
| usearch | 6.0.307 |
| usearch | 6.1.544 |
| usearch | 7.0.959 |
| USeq | 8.5.1 |
| vcftools | 0.1.7 |
| vcftools | 0.1.11 |
| velvet-kmer245 | 1.2.10 |
| velvet | 1.1.04 |
| velvet | 1.2.08 |
| velvet | 1.2.10 |
| velvetOptimiser | 2.2.5 |
| wessim | 1.0 |
| wgs | 7.0 |
| wise | 2.2.3-rc7 |