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Bianca softwareΒΆ

Category Name Module Versions
Alignment blast blast 2.14.1+, 2.15.0+, 2.16.0+
Alignment bowtie2 bowtie2 2.5.2
Alignment cactus cactus 2.7.2, 2.8.2
Alignment ClipKIT ClipKIT 2.2.4
Alignment CrossMap CrossMap 0.6.6
Alignment diamond diamond 2.0.6, 2.1.9
Alignment fasta fasta 36.3.8i
Alignment hmmer hmmer 3.4
Alignment last last 1505
Alignment lastz lastz 1.04.22
Alignment mapAD mapAD 0.42.1
Alignment mapcaller mapcaller 0.9.9.41
Alignment MashMap MashMap 3.0.4
Alignment minimap2 minimap2 2.26-r1175
Alignment miniprot miniprot 0.12, 0.13
Alignment MMseqs2 MMseqs2 14-7e284, 15-6f452
Alignment ngmlr ngmlr 0.2.7-20210816-a2a31fb
Alignment pbmm2 pbmm2 1.13.0
Alignment randfold randfold 2.0.1
Alignment RMBlast RMBlast 2.2.28, 2.14.1+
Alignment skani skani 0.2.1
Alignment SNAP-aligner SNAP-aligner 2.0.3
Alignment spaln spaln 3.0.3
Alignment star star 2.7.8a, 2.7.11a
Alignment trf trf 4.10.0-rc.2
Alignment tRNAscan-SE tRNAscan-SE 2.0.12
Alignment US-align US-align 20230727-e5c6270
Alignment wfmash wfmash 0.12.5
Alignment wgbs_tools wgbs_tools 0.2.2-20250518-1b067ae
Annotation af2complex af2complex 1.4.0
Annotation alphapulldown alphapulldown 1.0.4
Annotation augustus augustus 3.5.0, 3.5.0-20231223-33fc04d
Annotation bali-phy bali-phy 4.0-beta15
Annotation bcftools-score bcftools-score 1.18-20231207-9c8e21e
Annotation braker braker 3.0.7, 3.0.8
Annotation colabfold-local colabfold-local 1.5.5
Annotation compleasm compleasm 0.2.2, 0.2.5, 0.2.6
Annotation CookHLA CookHLA 1.0.0
Annotation copykat copykat 1.1.0-b7a4763
Annotation DeepLoc DeepLoc 2.0
Annotation dorado dorado 0.6.1, 0.8.2, 0.9.1, 1.2.0
Annotation duplex-tools duplex-tools 0.3.3
Annotation funannotate funannotate 1.8.1, 1.8.17
Annotation GATE GATE 0.42, 0.45
Annotation GeneMark GeneMark 4.69-es, 4.71-es, 4.72-es
Annotation GeneMark-ETP GeneMark-ETP 1.02-20231213-dd8b37b
Annotation GenomeThreader GenomeThreader 1.7.4
Annotation gimmemotifs gimmemotifs 0.18.0
Annotation HATCHet HATCHet 2.0.1
Annotation HATK HATK 2.0beta
Annotation hybpiper hybpiper 2.1.6
Annotation igv-reports igv-reports 1.12.0-python3.9.5
Annotation InterProScan None 5.67-99.0, .z
Annotation IsoQuant IsoQuant 3.3.1
Annotation jcvi jcvi 1.3.8
Annotation kmersGWAS kmersGWAS 20221010-a706bb7
Annotation LDAK LDAK 5.2, 6.1
Annotation LOHHLA LOHHLA 20210129-00744c5
Annotation LOHHLA-slagtermaarten LOHHLA-slagtermaarten 20200219-b38c477
Annotation macse macse 2.07
Annotation MakeHub MakeHub 1.0.5-20200210-1ecd6bb, 1.0.8-20240217-31cc299
Annotation metaeuk metaeuk 6-a5d39d9
Annotation msprime msprime 1.2.0
Annotation OBITools OBITools 1.2.13
Annotation OBITools3 OBITools3 3.0.1b24
Annotation omm-macse omm-macse 12.01
Annotation ORFfinder ORFfinder 0.4.3
Annotation OrthoFinder OrthoFinder 2.5.2, 2.5.5
Annotation polysolver polysolver v4
Annotation ProtHint ProtHint 2.6.0-20231027-103304c
Annotation pullseq pullseq 20230518-7381691
Annotation pVACtools pVACtools 3.1.1
Annotation pycoQC pycoQC 2.5.2
Annotation RepeatMasker RepeatMasker 4.1.5
Annotation sepp sepp 4.3.10_python_3.7.2, 4.5.1, 4.5.2
Annotation sequenza-utils sequenza-utils 3.0.0
Annotation SignalP SignalP 6.0h
Annotation snpEff snpEff 5.2
Annotation soprano soprano 20240418-938604e
Annotation SPLIT SPLIT 0.1.2.1-26f9b3a
Annotation svtools svtools 0.5.1
Annotation tabixpp tabixpp 1.1.2
Annotation TEspeX TEspeX 2.0.1
Annotation tobias tobias 0.17.3-86e7729
Annotation TransDecoder TransDecoder 5.7.1-20230913-8b926ac
Annotation TrEMOLO TrEMOLO 2.2-beta1
Annotation trex trex 20230904-df86afe, 20231120-d9c840a
Annotation TSEBRA TSEBRA 1.1.2.4
Annotation vartrix vartrix 1.1.22
Annotation vcf2maf vcf2maf 1.6.21
Annotation WhatsHap WhatsHap 2.3-20240529-be88057
Assembly assembly-stats assembly-stats 1.0.1-20211102-c006b9c
Assembly Captus Captus 1.1.0
Assembly Flye Flye 2.9.5
Assembly GetOrganelle GetOrganelle 1.7.3.3, 1.7.7.0
Assembly hifiasm hifiasm 0.16.1-r375, 0.19.8-r603, 0.20.0-r639
Assembly hifiasm-meta hifiasm-meta 0.3.2-r74
Assembly IPA IPA 1.8.0
Assembly L_RNA_scaffolder L_RNA_scaffolder 20190530-98f19e3
Assembly MBG MBG 1.0.14
Assembly metaMDBG metaMDBG 0.3-20240117-57f4493
Assembly miniasm miniasm 0.3-r179-20191007-ce615d1
Assembly myloasm myloasm 0.2.0
Assembly Polypolish Polypolish 5.0
Assembly purge_dups purge_dups 1.2.5, 1.2.6
Assembly Redundans Redundans 2.0.1
Assembly shovill shovill 1.0.0, 1.1.0
Assembly SKESA SKESA 2.4.0
Assembly spades spades 4.0.0
Assembly StringTie StringTie 2.2.1
Assembly TRUST4 TRUST4 1.1.7
Assembly Trycycler Trycycler 0.5.4
Assembly vg vg 1.29.0, 1.48.0
Bioinformatics alignment AGE AGE 0.4
Bioinformatics alignment GEM-Tools GEM-Tools 1.7.1
Bioinformatics alignment HISAT2 HISAT2 2.0.1-beta, 2.0.5, 2.1.0, 2.2.1
Bioinformatics alignment infernal infernal 1.0.2, 1.1.1, 1.1.2
Bioinformatics alignment Kalign Kalign 1.04, 2.04
Bioinformatics alignment LEON-BIS LEON-BIS 20130322
Bioinformatics alignment MafFilter MafFilter 1.1.2
Bioinformatics alignment MAFFT MAFFT 7.205, 7.245, 7.310, 7.407
Bioinformatics alignment MUMmer MUMmer 3.9.4alpha, 3.22, 3.23, 4.0.0beta2, 4.0.0rc1
Bioinformatics alignment unimap unimap 0.1-r46-dirty
Bioinformatics annotation AAT AAT r03052011
Bioinformatics annotation GEMINI None 0.16.3, 0.18.3, 0.19.0, 0.20.0, 0.20.1, .gemini_0.18.3
Bioinformatics annotation HaMStR None 13.2.3, .HaMStR, .HaMStR-old
Bioinformatics annotation InterProScan InterProScan 5.52-86.0
Bioinformatics annotation libBigWig libBigWig 0.4.4
Bioinformatics annotation ProtHint ProtHint 2.4.0
Bioinformatics annotation tmhmm tmhmm 2.0c
Bioinformatics annotation VIBRANT VIBRANT 1.2.1
Bioinformatics assembly A5-miseq A5-miseq 20140113, 20140604, 20160825
Bioinformatics assembly abyss abyss 1.3.5, 1.3.5-max, 1.3.7, 1.3.7-k128, 1.3.7-max, 1.5.2, 1.9.0, 1.9.0-k128, 2.0.2, 2.0.2-k128
Bioinformatics assembly allpathslg None 47300, 49618, 52485, 52488
Bioinformatics assembly AMOS AMOS 3.0.0, 3.1.0
Bioinformatics assembly ARC_assembler ARC_assembler 1.1.3
Bioinformatics assembly ARCS ARCS 1.0.6, 1.1.1
Bioinformatics assembly BESST None 1.0.4.3, 1.0.4.4, .besst
Bioinformatics assembly DBG2OLC DBG2OLC 20151208
Bioinformatics assembly DISCOVARdenovo None 51885, 52488
Bioinformatics assembly FALCON FALCON 0.3.0, 0.4.1, 2018.31.08-03.06
Bioinformatics assembly FALCON-integrate FALCON-integrate 20161113
Bioinformatics assembly Flye Flye 2.3.5, 2.4.2, 2.8.1
Bioinformatics assembly GAA GAA 1.1
Bioinformatics assembly GARM GARM 0.7, 0.7.3
Bioinformatics assembly IDBA None 1.1.1, 1.1.1-384, 1.1.3
Bioinformatics assembly LINKS LINKS 1.8.7
Bioinformatics assembly MaSuRCA MaSuRCA 2.0.3.1, 2.1.0, 2.2.1, 2.3.2, 3.1.3, 3.2.1, 3.2.2, 3.2.3, 3.3.5, 3.4.2
Bioinformatics assembly MetAMOS MetAMOS 1.5rc3
Bioinformatics assembly Metassembler Metassembler 1.5
Bioinformatics assembly MHAP MHAP 1.6
Bioinformatics assembly Platanus-allee Platanus-allee 2.0.2
Bioinformatics assembly quickmerge quickmerge 0.3-9233726
Bioinformatics assembly Unicycler Unicycler 0.4.8
Bioinformatics assembly wtdbg2 wtdbg2 2.4
Bioinformatics misc AdapterRemoval AdapterRemoval 2.1.7, 2.2.2
Bioinformatics misc AdmixTools AdmixTools 5.0-20170312, 5.0-20171024, 7.0.1, 20160803
Bioinformatics misc ADMIXTURE ADMIXTURE 1.3.0
Bioinformatics misc AlienTrimmer AlienTrimmer 0.4.0
Bioinformatics misc ANGSD ANGSD 0.917, 0.917-g6522d3e, 0.921, 0.933
Bioinformatics misc Athlates Athlates 20140426
Bioinformatics misc ATLAS_aDNA ATLAS_aDNA 20170510
Bioinformatics misc ATSAS ATSAS 2.8.3-1
Bioinformatics misc bam2fastx bam2fastx 1.3.0-80dbf79
Bioinformatics misc bambam bambam 1.4
Bioinformatics misc Bamsurgeon Bamsurgeon 1.3
Bioinformatics misc bcftools bcftools 1.8, 1.10
Bioinformatics misc BEETL BEETL 1.0.2, 1.1.0
Bioinformatics misc bgen bgen 1.1.4
Bioinformatics misc BioPerl BioPerl 1.6.924_Perl5.18.4, 1.7.1_Perl5.24.1, 1.7.2_Perl5.24.1, 1.7.2_Perl5.26.2
Bioinformatics misc bonito None 0.3.7-cpu, 0.3.8, 0.4.0
Bioinformatics misc BraCeR BraCeR 2019_10_03_22e49cb
Bioinformatics misc cdbfasta cdbfasta 1.00
Bioinformatics misc cellranger-ATAC None 1.2.0, 2.0.0
Bioinformatics misc CheckM CheckM 1.0.11, 1.0.12, 1.1.3
Bioinformatics misc CITE-seq-Count CITE-seq-Count 1.4.3
Bioinformatics misc CleaveLand4 CleaveLand4 4.3
Bioinformatics misc CNV-seq CNV-seq 20140812
Bioinformatics misc CNVnator CNVnator 0.3.2, 0.3.3
Bioinformatics misc CONCOCT CONCOCT 0.4.0, 0.4.0~, 0.5.0, 1.1.0
Bioinformatics misc Corset Corset 1.04, 1.07
Bioinformatics misc DATES DATES 753
Bioinformatics misc DosageConvertor DosageConvertor 1.0.4
Bioinformatics misc DWGSIM DWGSIM 0.1.11-6e9a361
Bioinformatics misc EnsEMBL-API EnsEMBL-API 87, 94
Bioinformatics misc EPACTS EPACTS 3.2.6, 3.2.6_milou, 3.3.0-a5209db
Bioinformatics misc ExpansionHunter None 2.5.3, 2.5.5
Bioinformatics misc FastANI FastANI 1.2
Bioinformatics misc fastp fastp 0.20.0, 0.23.1
Bioinformatics misc fcGENE fcGENE 1.0.7
Bioinformatics misc Filtlong Filtlong 0.2.0
Bioinformatics misc FLASH FLASH 1.2.11
Bioinformatics misc FusionCatcher None 1.00, 1.10, 1.33
Bioinformatics misc GEM GEM 2.7, 3.4
Bioinformatics misc GEMMA GEMMA 0.98.1
Bioinformatics misc GeneMark GeneMark 2.3-es, 4.32-es, 4.33-es, 4.33-es_Perl5.24.1, 4.38-es, 4.57-es, 4.62-es, 4.68-es
Bioinformatics misc Genepop Genepop 4.7
Bioinformatics misc GenomeTools GenomeTools 1.5.8, 1.5.9, 1.6.1
Bioinformatics misc GERP++ GERP++ 20110522
Bioinformatics misc GTOOL GTOOL 0.7.5
Bioinformatics misc HiCUP HiCUP 0.7.2
Bioinformatics misc htslib htslib 1.8, 1.10
Bioinformatics misc IGV None 2.3.17, 2.3.40, 2.3.92, 2.4.2, 2.8.13
Bioinformatics misc IGVtools IGVtools 2.3.17, 2.3.40, 2.3.91, 2.3.98
Bioinformatics misc IM IM 20091217
Bioinformatics misc IMa2p IMa2p 2015-08-09
Bioinformatics misc IMPUTE2 IMPUTE2 2.3.2
Bioinformatics misc ITSx None 1.0.9, 1.0.11, 1.1-beta, .itsx
Bioinformatics misc KAT KAT 2.0.4, 2.0.6, 2.0.8, 2.1.1, 2.3.4, 2.4.2, 2.4.2_py3.5.0, 2.4.2_py3.7.2
Bioinformatics misc KmerGenie None 1.6741, 1.7039, .kmergenie
Bioinformatics misc Kraken None 0.10.5-beta, 1.0, 1.1-352e780, 1.1.1, 1.1.1-20210927-375654f
Bioinformatics misc Kraken2 Kraken2 2.0.8-beta
Bioinformatics misc Krona Krona 2.7
Bioinformatics misc LASER LASER 2.01, 2.02, 2.04
Bioinformatics misc LatentStrainAnalysis LatentStrainAnalysis 20160322
Bioinformatics misc LDhelmet LDhelmet 1.7, 1.9, 1.10
Bioinformatics misc LTR_Finder LTR_Finder 1.0.5, 1.0.7
Bioinformatics misc LUMPY LUMPY 0.2.12, 0.2.13, 0.2.13-97cf18c, 0.2.13-213a417, 0.3.0
Bioinformatics misc MACE MACE 1.2
Bioinformatics misc MACS MACS 2.1.0, 2.1.2, 2.2.6, 3.0.0a6
Bioinformatics misc MAGeCK MAGeCK 0.5.6, 0.5.9.4
Bioinformatics misc medaka medaka 0.7.1
Bioinformatics misc Meerkat Meerkat 0.189
Bioinformatics misc MetaBat MetaBat 0.26.3, 2.12.1
Bioinformatics misc METAL METAL 2011-03-25
Bioinformatics misc MetaSV MetaSV 0.5.4
Bioinformatics misc Metaxa2 Metaxa2 2.1.3, 2.2
Bioinformatics misc MethPipe MethPipe 3.4.3, 4.1.1
Bioinformatics misc MethylDackel MethylDackel 0.2.1, 0.5.1
Bioinformatics misc Mothur Mothur 1.40.5, 1.41.0
Bioinformatics misc ms ms 20071014
Bioinformatics misc MultiQC MultiQC 0.6, 0.7, 0.8, 1.8, 1.9, 1.10
Bioinformatics misc NanoComp NanoComp 1.9.2
Bioinformatics misc NanoPlot NanoPlot 1.33.1
Bioinformatics misc NPStat NPStat 1
Bioinformatics misc nseg nseg 1.0.1
Bioinformatics misc ont_fast5_api ont_fast5_api 3.1.6
Bioinformatics misc PCAngsd PCAngsd 0.982
Bioinformatics misc PennCNV PennCNV 20151014
Bioinformatics misc phantompeakqualtools phantompeakqualtools 1.1
Bioinformatics misc phaser phaser 20210423-5d4926d
Bioinformatics misc piper piper 1.5.1
Bioinformatics misc pizzly pizzly 0.37.3
Bioinformatics misc plink2 plink2 2.00-alpha-2-20180704, 2.00-alpha-2-20190429, 2.00-alpha-2.3-20200124
Bioinformatics misc Porechop Porechop 0.2.4
Bioinformatics misc prodigal prodigal 2.6.3
Bioinformatics misc PRSice PRSice 2.2.11.b
Bioinformatics misc psmc psmc 0.6.5-r67-e5f7df5
Bioinformatics misc RECON RECON 1.08
Bioinformatics misc RegScan RegScan 0.5
Bioinformatics misc RepeatScout RepeatScout 1.0.5, 1.0.6
Bioinformatics misc schmutzi schmutzi 20160424, 20200706-597c6bc
Bioinformatics misc SeqAn None 1.4.2, 2.4.0
Bioinformatics misc SeqKit SeqKit 0.15.0
Bioinformatics misc seqmonk seqmonk 0.21.0, 0.27.0, 0.32.1, 0.34.1, 1.36.0, 1.37.1
Bioinformatics misc SMC++ SMC++ 1.15.2
Bioinformatics misc snippy snippy 4.0, 4.0.5, 4.6.0
Bioinformatics misc spaceranger spaceranger 1.0.0, 1.2.0
Bioinformatics misc SweeD SweeD 4.0.0
Bioinformatics misc tabix tabix 0.2.6
Bioinformatics misc Tombo Tombo 1.5.1
Bioinformatics misc vawk vawk 0.0.1
Bioinformatics misc velocyto velocyto 0.17.17
Bioinformatics phylogeny CONSEL CONSEL 0.20
Bioinformatics phylogeny ExaBayes ExaBayes 1.5, 1.5-mpi
Bioinformatics phylogeny FastML FastML 3.1, 3.11
Bioinformatics phylogeny FastTree FastTree 2.1.8, 2.1.10
Bioinformatics phylogeny HyPhy HyPhy 2.5.0, 2.5.0-mpi
Bioinformatics phylogeny MEGAN None 4.70.4, 5.1.5, 5.11.3, 6.3.5, 6.10.5, 6.20.17, .MEGAN
Bioinformatics phylogeny raxml None 7.0.4, 7.2.7, 7.2.8, 7.3.0, 7.4.7, 8.0.20, 8.0.20-mpi, 8.2.0-gcc, 8.2.0-gcc-mpi, 8.2.0-icc, 8.2.0-icc-mpi, 8.2.0_gcc, 8.2.0_icc, 8.2.4-gcc, 8.2.4-gcc-mpi, 8.2.10-gcc, 8.2.10-gcc-mpi, 8.2.12-gcc, 8.2.12-gcc-mpi, .raxml
Bioinformatics phylogeny RAxML-NG RAxML-NG 0.9.0-mpi
Bioinformatics pipelines fermikit fermikit 0.14-prerelease-96f7820, r178
Bioinformatics pipelines nf-core nf-core 1.12.1, 1.14, 2.1
Bioinformatics pipelines nf-core-pipelines nf-core-pipelines latest
Bioinformatics sw collections 454-dataanalysis 454-dataanalysis 2.3, 2.5.3, 2.6, 2.9
Bioinformatics sw collections 454-dataprocessing 454-dataprocessing 2.3
Bioinformatics sw collections ART ART 2016-06-05
Bioinformatics sw collections BEDOPS BEDOPS 2.4.3, 2.4.28, 2.4.39
Bioinformatics sw collections BEDTools BEDTools 2.21.0, 2.23.0, 2.25.0, 2.26.0, 2.27.1, 2.29.2
Bioinformatics sw collections BioScope BioScope 1.3.1
Bioinformatics sw collections CASAVA CASAVA 1.7.0, 1.8.2
Bioinformatics sw collections cellranger None 1.1.0, 1.3.0, 2.0.2, 2.2.0, 3.0.1, 4.0.0, 5.0.1, 6.0.2
Bioinformatics sw collections cellranger-ARC cellranger-ARC 1.0.0
Bioinformatics sw collections cellranger-DNA cellranger-DNA 1.1.0
Bioinformatics sw collections GATK GATK 3.5.0, 3.6, 3.7, 3.8-0, 4.1.0.0, 4.1.1.0, 4.beta.5, build-20160727
Bioinformatics sw collections GATK-Queue GATK-Queue 3.2.2, 3.6, 3.7, 3.8-0
Bioinformatics sw collections GenomeSTRiP GenomeSTRiP 2.00.1650, 2.00.1685, 2.00.1710
Bioinformatics sw collections HiSeq HiSeq 0.9
Bioinformatics sw collections longranger longranger 2.0.1, 2.1.1, 2.1.2, 2.1.4, 2.2.2
Bioinformatics sw collections MEMEsuite MEMEsuite 5.0.1
Bioinformatics sw collections supernova None 1.0.0, 1.1.1, 1.1.4, 2.0.0, 2.1.1
Chemistry/physics ABINIT ABINIT 8.10.3
Chemistry/physics ALPS ALPS 2.3.0
Chemistry/physics DOCK DOCK 3.7
Chemistry/physics gromacs None 4.5.5, 4.5.5_intel, 4.5.7.th, 4.6.3, 4.6.3_rackham, 4.6.5, 4.6.5.th, 4.6.5_rackham, 4.6.7.th, 4.6.7.th.dp, 5.0.4, 5.0.4_rackham, 5.0.7, 5.1.1, 5.1.1_rackham, 5.1.5, 2016.1, 2016.6, 2018.6, 2018.6.th, 2019.1, 2019.1.th, 2019.6.th, 2020-GPU, 2021.1.th, .4.6
Chemistry/physics molcas molcas 7.8.082, 8.0.15-03-08
Chemistry/physics molden molden 5.1
Chemistry/physics TmoleX TmoleX 18
Compilers and build tools ant ant 1.9.8, 1.10.0
Compilers and build tools autoconf autoconf 2.68, 2.69
Compilers and build tools automake automake 1.14.1, 1.16.1
Compilers and build tools binutils binutils 2.26, 2.28, 2.38, 2.39, 2.41
Compilers and build tools ddt ddt 3.2.1, 5.0.1, 6.0, 6.1, 7.0
Compilers and build tools flex flex 2.6.4
Compilers and build tools fpc fpc 3.0.4
Compilers and build tools git git 2.5.0, 2.10.2, 2.16.1, 2.21.0, 2.24.0, 2.28.0, 2.34.1, 2.44.0
Compilers and build tools git-lfs git-lfs 2.9.1, 3.5.1
Compilers and build tools guile guile 1.8.8
Compilers and build tools java java OpenJDK, OpenJDK_11.0.2, OpenJDK_12+32, OpenJDK_17+35, OpenJDK_22+36, OpenJDK_24+36, OracleJDK, OracleJDK_11.0.9, sun_jdk1.6.0_04, sun_jdk1.6.0_18, sun_jdk1.6.0_45, sun_jdk1.7.0_25, sun_jdk1.8.0_40, sun_jdk1.8.0_92, sun_jdk1.8.0_151
Compilers and build tools julia julia 0.3.0-prerelease+3043, 0.3.11, 0.4.6, 1.1.1, 1.4.2, 1.6.1, 1.9.3, 1.10.10_LTS, 1.11.6
Compilers and build tools libtool libtool 2.4.6
Compilers and build tools maven maven 3.6.0
Compilers and build tools meson meson 0.49.2, 0.57.2, 1.1.0
Compilers and build tools mono mono 3.12.0, 5.8.1.0, 5.10.1.27
Compilers and build tools ninja ninja 1.9.0, 1.10.0
Compilers and build tools patchelf patchelf 0.1, 0.8
Compilers and build tools perl perl 5.18.2, 5.18.4, 5.22.2, 5.24.0, 5.24.1, 5.26.2, 5.32.1
Compilers and build tools perl6 perl6 rakudo-star-2017.04, rakudo-star-2019.03
Compilers and build tools perl_modules perl_modules 5.18.4, 5.24.1, 5.26.2, 5.32.1
Compilers and build tools python None 2.5, 2.6, 2.6.1, 2.6.5, 2.6.6, 2.7, 2.7.1, 2.7.2, 2.7.4, 2.7.6, 2.7.9, 2.7.11, 2.7.15, 2.7i, 3.1, 3.1.2, 3.1.3, 3.2, 3.2.4, 3.3, 3.3.1, 3.4.3, 3.5.0, 3.6.0, 3.6.8, 3.7.2, 3.8.7, 3.9.5, 3.10.8, 3.11.8, 3.12.1, 3.12.7, 3.13.11, python-rpath.tcl, python-set-LD_LIBRARY_PATH.tcl, python-set-LD_LIBRARY_PATH_new.tcl
Compilers and build tools python3 None 3.6.0, 3.6.8, 3.7.2, 3.8.7, 3.9.5, 3.11.4, 3.11.8, 3.12.1, 3.12.7, 3.13.11, python3-rpath.tcl
Compilers and build tools ruby ruby 2.4.1, 2.5.0, 2.6.2
Compilers and build tools subversion None 1.9.3, 1.10.6
Engineering matlab None 7.4, 7.8, 7.10, 7.13, 8.0, 8.1, .matlab, .matlab_ny, .matlab_ny~, R2014a, R2015a, R2015b, R2016a, R2017a, R2018a, R2018b, R2019a, R2020b
Geospatial CDO CDO 1.9.5, 1.9.7.1, 1.9.7.1-intel18.3
Geospatial ecCodes ecCodes 2.13.1
Geospatial FYBA FYBA 4.1.1
Geospatial GEOS GEOS 3.5.0, 3.9.1-gcc9.3.0, 3.12.0-gcc12.3.0
Geospatial GOTM GOTM 5.3-221-gac7ec88d
Geospatial libgeotiff libgeotiff 1.4.1, 1.4.3, 1.7.1
Geospatial Magics Magics 3.3.1, 3.3.1-intel18.3
Geospatial NCO NCO 4.8.1, 4.9.2, 4.9.3
Geospatial PROJ PROJ 6.3.2
Geospatial PROJ.4 PROJ.4 4.9.2, 4.9.3, 4.9.3-intel18.3
Geospatial QGIS QGIS 3.4.12, 3.32.3
Geospatial SHAPELIB SHAPELIB 1.5.0
Libraries ATLAS ATLAS 3.10.3
Libraries blas blas 3.6.0
Libraries boost boost 1.41.0_gcc9.3.0, 1.44.0, 1.45.0, 1.55.0, 1.55.0_gcc4.8.3, 1.58.0-gcc8.3.0, 1.59.0_gcc4.9.2, 1.59.0_intel15.3, 1.60.0_gcc5.3.0, 1.61.0_gcc5.3.0, 1.63.0_gcc6.3.0, 1.63.0_gcc6.3.0_mpi2.0.2, 1.63.0_intel17.1, 1.66.0, 1.66.0-gcc8.3.0, 1.70.0_gcc9.1.0, 1.70.0_gcc9.1.0_mpi3.1.3, 1.70.0_gcc9.3.0, 1.70.0_gcc9.3.0_mpi3.1.5, 1.70.0_intel18.3, 1.70.0_intel18.3_intelmpi18.3, 1.70.0_intel18.3_mpi3.1.3, 1.75.0-gcc9.3.0, 1.78.0_gcc11.2.0, 1.78.0_gcc11.2.0_mpi4.1.2, 1.79.0_gcc11.2.0_mpi4.1.2, 1.81.0-gcc10.3.0, 1.83.0-gcc12.3.0, 1.83.0-gcc12.3.0-mpi4.1.5
Libraries bzip2 bzip2 1.0.6, 1.0.8
Libraries cairo cairo 1.14.8, 1.14.12, 1.17.2, 1.17.4
Libraries deal.II deal.II 9.1.1-gcc, 9.1.1-intel
Libraries fftw fftw 3.3.8
Libraries freetype freetype 2.6, 2.7.1, 2.10.1, 2.12.1
Libraries giflib giflib 5.1.4
Libraries glpk glpk 4.63, 4.65
Libraries gsl gsl 1.16, 2.1, 2.3, 2.5, 2.6, 2.7
Libraries hdf4 hdf4 4.2.11_gcc4.9.2, 4.2.14-gcc6.3.0
Libraries hdf5 hdf5 1.8.16_gcc4.9.2, 1.8.16_gcc5.3.0, 1.8.18, 1.8.18_gcc6.3.0, 1.10.1, 1.10.5, 1.10.5-threadsafe-intel18.3, 1.10.9, 1.14.0
Libraries jemalloc jemalloc 3.6.0, 5.0.1, 5.3.0
Libraries libcurl libcurl 7.45.0, 8.4.0
Libraries libharu libharu 2.3.0
Libraries libwebp libwebp 1.0.3, 1.2.0, 1.3.0
Libraries lpsolve lpsolve 5.5.2.9
Libraries netcdf netcdf 4.7.1, 4.7.1-intel18.3
Libraries NLopt NLopt 2.6.1
Libraries openblas openblas 0.2.14a, 0.2.19, 0.2.19-singlethread, 0.2.20, 0.2.20-openmp, 0.2.20-singlethread, 0.3.21, 0.3.26, 0.3.29
Libraries pcre pcre 8.40
Libraries PLplot PLplot 5.15.0, 5.15.0-old_wxWidgets
Libraries Poppler Poppler 0.43.0, 0.54.0, 0.75.0, 23.02.0, 23.09.0
Libraries protobuf protobuf 3.11.4, 24.3-gcc12.3.0
Libraries pslib pslib 0.4.6
Libraries slurm-drmaa slurm-drmaa 1.1.2-slurm19.05.8, 1.1.4-slurm23.02.5
Libraries sparsehash None 2.0.2, 2.0.3, 2.0.4
Libraries szip None 2.1.1, 2.1_gcc4.9.2, 2.1_gcc5.3.0
Libraries tbb tbb 4.4u1_gcc4.9.2, 4.4u1_intel15.3, 2020.3
Libraries UDUNITS UDUNITS 2.2.26
Libraries wxWidgets wxWidgets 3.1.3-gtk2, 3.1.3-gtk3, 3.1.3-qt5
Libraries Yeppp Yeppp 1.0.0
Libraries zlib zlib 1.2.8, 1.2.11, 1.2.13, 1.3, 1.3.1
Misc ABSOLUTE ABSOLUTE 2023-6c98496
Misc AdapterRemoval AdapterRemoval 2.3.1, 2.3.4
Misc AFNI AFNI 24.3.08
Misc AGAT AGAT 1.0.0, 1.3.2
Misc alfred alfred 0.3.2
Misc alleleCount alleleCount 4.2.1
Misc ANGSD ANGSD 0.700, 0.902, 0.915, 0.940-stable
Misc any2fasta any2fasta 0.4.2
Misc Arlequin Arlequin 3.5.2.2
Misc ARPIP ARPIP 2023.10.02-ee32c10
Misc ASHS ASHS 2.0.0
Misc bamtools bamtools 2.5.2
Misc bamUtil bamUtil 1.0.15
Misc bcftools bcftools 1.19, 1.20
Misc Beagle Beagle 4.1
Misc bgen bgen 1.1.6
Misc BioBakery BioBakery 3.0, 3.1, 3.8
Misc BioKIT BioKIT 0.0.9
Misc BioPerl None 1.6.1, 1.6.1_PERL5.10.1, 1.6.1_PERL5.12.3, 1.6.922, 1.6.923_Perl5.18.4, 1.7.8-perl5.32.1, .BioPerl
Misc BUSCO BUSCO 4.1.4, 5.3.1, 5.5.0, 5.7.1
Misc Cellsnp-lite Cellsnp-lite 1.2.2
Misc CHEUI CHEUI 20230518-c1c9ab6
Misc Chromium-cellranger-ATAC cellranger-ATAC 1.2.0, 2.0.0, 2.1.0
Misc Chromium-spaceranger spaceranger 1.0.0, 4.0.1
Misc ChromoPainter ChromoPainter 0.0.4
Misc Citup Citup 0.1.0
Misc CRABS CRABS 0.1.2
Misc CRISPResso CRISPResso 1.0.7, 2.3.1
Misc DamageProfiler DamageProfiler 1.1
Misc datamash datamash 1.8
Misc DATES DATES 4010
Misc dds-cli dds-cli latest
Misc deepTools deepTools 3.5.5, 3.5.6
Misc EAGLE EAGLE 1.1.3
Misc FAN-C FAN-C 0.9.26
Misc FastANI FastANI 1.33, 1.34
Misc fastK fastK 1.1.0
Misc fastp fastp 0.23.4
Misc fgbio fgbio 2.2.1-0
Misc fineRADstructure fineRADstructure 0.3.1
Misc FLAMES FLAMES 20221109-774e16a
Misc FLASH FLASH 2.2.00
Misc freebayes freebayes 1.3.8
Misc fsl fsl 6.0, 6.0.3
Misc gdc-client gdc-client 2.3
Misc gffread gffread 0.12.7
Misc giggle giggle 0.6.3
Misc GLIMPSE GLIMPSE 1.1.1, 2.0.0
Misc grenedalf grenedalf 0.3.0, 0.6.0
Misc GTDB-Tk GTDB-Tk 0.3.2, 1.5.0, 2.3.2, 2.4.0
Misc Guppy Guppy 5.0.16-cpu, 5.0.16-gpu, 6.0.6-cpu, 6.0.6-gpu, 6.3.7-cpu, 6.3.7-gpu, 6.4.2-cpu, 6.4.2-gpu, 6.5.7-cpu, 6.5.7-gpu
Misc halla halla 0.8.20
Misc HiCExplorer HiCExplorer 2.2-beta, 3.7.3
Misc htslib htslib 1.19, 1.20
Misc HUMAnN HUMAnN 3.6, 3.8
Misc HybPhaser HybPhaser 2.1.0
Misc IGVtools IGVtools 2.8.13, 2.16.0
Misc IMPUTE5 IMPUTE5 1.2.0
Misc ITK-SNAP ITK-SNAP 4.4.0
Misc Juicebox Juicebox 1.11.08
Misc KING KING 2.3.2
Misc kingfisher kingfisher 0.3.0
Misc KMC KMC 3.2.2
Misc KneadData KneadData 0.12.0
Misc Kraken2 Kraken2 2.1.3-20231102-acc2248
Misc KrakenUniq KrakenUniq 0.6, 1.0.0, 1.0.1
Misc Krona Krona 2.7.1, 2.8.1-20211222-d1479b3
Misc ldsc ldsc 1.0.0, 1.0.1, 2.0.1
Misc MACS MACS 1.4.1, 1.4.2, 3.0.0b1
Misc maegatk maegatk 0.2.0, 0.2.1
Misc MAGeCK2 MAGeCK2 20211209-435eacd
Misc mapDamage mapDamage 2.2.3
Misc mash mash 2.0, 2.3, 2.3-20210519-41ddc61
Misc meryl meryl 1.4.1
Misc METAL METAL 2020-05-05
Misc MetaXcan MetaXcan 20210925-cfc9e36
Misc metilene metilene 0.2-8
Misc mgatk mgatk 0.7.0
Misc Minimac4 Minimac4 4.1.6
Misc mirdeep2 mirdeep2 2.0.1.3-20220221-c6440e2
Misc miRDP2 miRDP2 1.1.4
Misc MiXCR MiXCR 4.7.0
Misc modkit modkit 0.2.5-rc2, 0.3.1, 0.3.3, 0.4.1, 0.5.1-rc1
Misc mosdepth mosdepth 0.3.3
Misc Mothur Mothur 1.25.1, 1.30.1, 1.33.3, 1.36.1, 1.38.1, 1.48.0
Misc MRIcroGL MRIcroGL 1.2.20220720
Misc msisensor-pro msisensor-pro 1.2.0
Misc MultiQC MultiQC 1.22.2
Misc NCBI-datasets NCBI-datasets 15.29.0, 16.35.0
Misc ont_h5_validator ont_h5_validator 2.0.1
Misc pbwt pbwt 2.1
Misc PharmCAT PharmCAT 3.1.1
Misc phyluce phyluce 1.7.3
Misc picard picard 3.1.1
Misc Pisces Pisces 5.3.0.0
Misc plink2 plink2 2.00-alpha-3.7-20221024, 2.00-alpha-5-20230923, 2.00-alpha-6.20-20250707
Misc preseq preseq 3.2
Misc PROJ PROJ 8.1.0, 9.1.1
Misc PyClone-VI PyClone-VI 20210623-6607ea1
Misc pyega3 pyega3 5.1.0
Misc Raremetal Raremetal 4.15.1
Misc refgenie refgenie 0.12.1
Misc regenie regenie 3.4.1
Misc removethis removethis 1
Misc RepeatModeler RepeatModeler 2.0.4
Misc RGT RGT 1.0.2
Misc rtgcore rtgcore 3.12.1
Misc rtgtools rtgtools 3.12.1
Misc samtools samtools 1.7, 1.19, 1.20
Misc scanpy scanpy 1.11.0
Misc schmutzi schmutzi 1.5.7
Misc scikit-allel scikit-allel 1.3.5
Misc scvi-tools scvi-tools 1.0.4
Misc SeqKit SeqKit 2.4.0
Misc SeqLib SeqLib 1.2.0
Misc seqOutBias seqOutBias 1.4.0
Misc seqstats seqstats 20170404-e6f482f
Misc SHAPEIT SHAPEIT v4.2.2, v5.1.1
Misc skewer skewer 0.2.2
Misc slivar slivar 0.2.7
Misc SMC++ SMC++ 1.15.4, 1.15.5.dev12+g8bdecdf
Misc smudgeplot smudgeplot 0.3, 0.4.0
Misc SNPTEST SNPTEST 2.5.6
Misc SparsePainter SparsePainter 1.2.1
Misc squidpy squidpy 1.6.5
Misc sracat sracat 20210916-b896745
Misc sratools sratools 3.0.7
Misc Stacks Stacks 2.66
Misc SVDB SVDB 2.8.1
Misc truvari truvari 4.3.1
Misc vcflib vcflib 1.0.9, 1.0.14
Misc vcfstats vcfstats 0.4.2
Misc vep vep 110.1, 111.0, 113.0
Misc XP-CLR XP-CLR 1.1.2
Misc applications agrep agrep 3.41.5
Misc applications awscli awscli 1.11.140, 1.16.225, 1.29.52
Misc applications circos circos 0.69-9
Misc applications cmake cmake 3.5.1, 3.7.2, 3.13.2, 3.17.3
Misc applications cowsay cowsay 3.03
Misc applications Cromwell Cromwell 71, 86
Misc applications doxygen doxygen 1.8.11
Misc applications emacs emacs 25.1, 25.2, 27.2, 28.2
Misc applications gawk gawk 4.1.4
Misc applications gdl gdl 1.0.0-rc.1
Misc applications GhostPDL GhostPDL 9.53.3
Misc applications gnuplot None 4.4.3, 4.6.5, 5.0.7, 5.2.7, .gnuplot
Misc applications Graphviz Graphviz 2.40.1, 9.0.0
Misc applications groff groff 1.22.3
Misc applications h5utils h5utils 1.12.1
Misc applications haskell-stack None 1.0.4.3, 1.4.0, 1.7.1
Misc applications jq jq 1.6
Misc applications MariaDB MariaDB 10.2.11
Misc applications mbuffer mbuffer 20151002
Misc applications mcl mcl 14-137, 22-282
Misc applications metaWRAP metaWRAP 1.3.2
Misc applications openbabel openbabel 3.1.1-gcc9.3.0, 3.1.1-gcc12.3.0
Misc applications OpenBUGS OpenBUGS 3.2.3
Misc applications p7zip p7zip 16.02
Misc applications pandoc pandoc 1.16.0.2, 2.2.3.2, 2.10.1
Misc applications PostgreSQL PostgreSQL 10.3
Misc applications povray povray 3.7
Misc applications ROOT ROOT 6.04.08, 6.06.08, 6.20.04
Misc applications SAIGE SAIGE 0.42.1, 1.4.1, 1.5.0
Misc applications SCons None 2.5.0, .scons
Misc applications sqlite sqlite 3.8.5, 3.11.1, 3.16.2, 3.24.0, 3.34.0, 3.45.0
Misc applications swig swig 3.0.7, 3.0.12, 4.1.1
Misc applications texinfo texinfo 6.0, 6.5, 6.6, 6.8, 7.1
Misc applications texlive texlive 2015, 2016, 2018, 2019, 2021, 2023-08-14, 2024-04-24
Misc applications tinyutils None 1.1, 1.2, 1.3, 1.4, .tinyutils-1.1
Misc applications tmux tmux 2.5, 3.1b, 3.3a
Misc applications vim None 8.0-1360, 8.1-1053, 8.2.3701
Misc applications xz xz 5.2.2, 5.2.6, 5.4.5
Parallel gnuparallel gnuparallel 20140222, 20150522, 20170122, 20180822, 20230422
Phylogeny Dsuite Dsuite 0.5-r57
Phylogeny FastME FastME 2.1.6.4
Phylogeny FastTree FastTree 2.1.11
Phylogeny G-Nomix G-Nomix 2022-09-18-de952a2
Phylogeny HyPhy HyPhy 2.5.51-mpi
Phylogeny iqtree iqtree 2.2.2.6-omp-mpi
Phylogeny KIN KIN 3.1.3, 3.1.3-20230612-76dc469
Phylogeny MetaPhlAn4 MetaPhlAn4 4.0
Phylogeny paml paml 4.10.7
Phylogeny pathPhynder None 1.a-20221011-a407a97, 2020-12-19-b8532c0
Phylogeny phylip phylip 3.697
Phylogeny PhyloPhlAn PhyloPhlAn 3.0.3
Phylogeny phyx phyx 1.3
Phylogeny read2tree read2tree 0.1.5-20240117-ff2d167
Phylogeny snphylo snphylo 20180901
Pipelines 3D-DNA 3D-DNA 20190801-529ccf4
Pipelines biomodal biomodal 1.0.2
Pipelines cactus_atac cactus_atac 1.0.0
Pipelines cutadapt cutadapt 4.5, 4.8, 5.0
Pipelines GenoPredPipe GenoPredPipe 20211104-02777ce, 20221121-e3caf6b
Pipelines happy happy 1.0.0
Pipelines Juicer Juicer 1.6, 2.0
Pipelines Juicer_tools Juicer_tools 1.6, 1.22.01
Pipelines MPRASuite MPRASuite 1.0.3
Pipelines nextNEOpi nextNEOpi 1.4.0
Pipelines nf-core nf-core 2.4.1, 2.6, latest
Pipelines Panaroo Panaroo 1.2.10, 1.3.2
Pipelines ParseBiosciences-Pipeline ParseBiosciences-Pipeline 1.4.0, 1.6.4
Pipelines PEPATAC PEPATAC 0.12.3
Pipelines qiime2 qiime2 2024.2, 2024.10
Pipelines SALSA SALSA 20220408-ed76685
Pipelines Seurat Seurat 5.0.2, 5.1.0, 5.2.1, 5.3.0
Pipelines SMRT SMRT 13.0.0.207600
Pipelines snakemake snakemake 5.32.2, 8.20.1
Pipelines star-fusion star-fusion 1.9.1, 1.10.1
Pipelines ViWrap ViWrap 1.3.0
Statistics nonmem nonmem 7.3.0, 7.4.3, 7.4.4, 7.5.0, 7.6.0
Statistics PsN PsN 5.0.0
Statistics R None 2.8, 2.8.1, 2.10, 2.10.1, 2.11.1, 2.12.1, 2.12.2, 2.13.0, 2.14.0, 2.15.0, 2.15.1, 2.15.2, 3.0.1, 3.0.2, 3.1.0, 3.2.2, 3.2.3, 3.3.0, 3.3.1, 3.3.2, 3.3.2_rackham, 3.4.0, 3.4.3, 3.5.0, 3.5.2, 3.6.0, 3.6.1, 4.0.0, 4.0.4, 4.1.1, 4.2.1, 4.3.1, 4.3.2, 4.4.2, 4.5.1, .R, R.tcl
Statistics R_packages R_packages 3.3.0, 3.3.1, 3.3.2, 3.4.0, 3.4.3, 3.5.0, 3.5.2, 3.6.0, 3.6.1, 4.0.0, 4.0.4, 4.1.1, 4.3.1, 4.5.1
Statistics RStudio RStudio 1.0.136, 1.0.143, 1.0.153, 1.1.423, 1.1.463, 1.4.1106, 2022.02.0-443, 2022.02.3-492, 2022.07.1-554, 2023.06.0-421, 2023.06.2-561, 2023.12.1-402, 2024.04.2-764
Sw_collections bbmap bbmap 39.06, 39.08
Sw_collections BEDOPS BEDOPS 2.4.41
Sw_collections BEDTools BEDTools 2.20.1, 2.31.1
Sw_collections cellbender cellbender 0.3.0
Sw_collections Chromium-cellranger cellranger 4.0.0, 5.0.1, 6.0.2, 6.1.2, 7.0.0, 7.0.1, 7.1.0, 8.0.1, 9.0.1
Sw_collections Chromium-cellranger-ARC cellranger-ARC 1.0.0, 2.0.2
Sw_collections DRAGEN DRAGEN 4.1.5
Sw_collections GATK GATK 1.0.4105, 1.0.5365, 1.0.5909, 1.2.12, 1.4.5, 1.4.21, 1.5.11, 1.5.21, 2.1.13, 2.3.6, 2.5.2, 2.7.2, 2.8.1, 3.1.1, 3.2.0, 3.2.2, 3.3.0, 3.4-46, 3.4.0, 3.4.46, 4.0.8.0, 4.1.4.1, 4.3.0.0, 4.6.2.0
Sw_collections MEMEsuite MEMEsuite 4.11.1, 4.11.2_1, 5.1.1, 5.5.1, 5.5.8
Sw_collections SpeedPPI SpeedPPI 2023.07.11-37d0a03
Uncategorized alphafold alphafold 2.3.1, 3.0.1
Uncategorized alphafold_dataset alphafold_dataset 2.0.0, 2.1.1, 2.3.1, 3.0.1
Uncategorized Amber None 16-GPU, 18-GPU
Uncategorized amber_previous None amber.tcl, ambertools18_intel_python2
Uncategorized AmpliconNoise None 1.27
Uncategorized AnnotSV None 1.1.1
Uncategorized annovar_data None 2019.10.21, 2021.05.18
Uncategorized Ansys Ansys 19.1, 19.5, 2020R1, 2023R2
Uncategorized apr None 1.7.0
Uncategorized apr-util None 1.6.1
Uncategorized archspec archspec 0.2.4
Uncategorized aria2 aria2 1.36
Uncategorized Armadillo None 7.900.0, 9.700.2
Uncategorized ascp ascp 4.2.0.183804, 4.4.3.891, 4.4.4.1308
Uncategorized athena None 1.1
Uncategorized BackSPIN None 20171211_2fbcf5d
Uncategorized BAM-matcher None 20160611, .bammatcher, .bammatcher~
Uncategorized Bandage None 0.8.0
Uncategorized bazel bazel 7.0.0-pre.20230917.3
Uncategorized bcftools-MoCha None 1.9-20191129, 1.11-20210315, 2019-11-29
Uncategorized BclConverter None 1.7.1
Uncategorized BioBakery_data BioBakery_data 3.0-20210423, 3.1-20231102
Uncategorized BisSNP None 0.82.2, .bissnp
Uncategorized BLAKE2 BLAKE2 20230212-ed1974e
Uncategorized Bracken None 2.5
Uncategorized bubblewrap bubblewrap 0.6.2
Uncategorized BUSCO_data BUSCO_data latest
Uncategorized c3d c3d 1.4.4
Uncategorized CAMMiQ None 20211015-6142150
Uncategorized CAP3 None 08-06-13
Uncategorized capnproto capnproto 1.0.2
Uncategorized CAT None 20190926-e25443
Uncategorized cellranger-ARC-data None 2020-A
Uncategorized cellranger-ATAC-data None 1.2.0, 2.0.0
Uncategorized cellranger-data cellranger-data 1.1.0, 1.2.0, 3.0.0, 2020-A, 2024-A
Uncategorized cellranger-DNA-data None 1.0.0
Uncategorized cellranger-VDJ-data cellranger-VDJ-data 4.0.0, 5.0.0, 7.1.0
Uncategorized chain_files chain_files 20230825
Uncategorized ChEMBL ChEMBL 22.1, 33
Uncategorized ChimeraSlayer None 20110519
Uncategorized Chromium-cellranger-DNA None 1.1.0
Uncategorized Chromium-longranger None 2.2.2
Uncategorized circlator None 1.5.5
Uncategorized clapack clapack 3.2.1
Uncategorized clearcut None 1.0.9
Uncategorized ClonalFrameML None 1.11-4f13f23
Uncategorized conda None latest
Uncategorized coreutils None 8.25, 8.27
Uncategorized CPLEXOptimizationStudio None 12.9.0, 20.1
Uncategorized CROP None 1.33
Uncategorized CS-Rosetta None 1.01_Rosetta_3.7
Uncategorized CST_Studio CST_Studio 2023.0
Uncategorized CTAT_RESOURCE_LIB None 2017-11, 2018-02, 2019-08
Uncategorized cuda cuda 11.2.1, 11.7.0, 11.8.0, 12.0.0, 12.1.0, 12.1.1, 12.2.0, 12.2.2
Uncategorized cuDNN cuDNN 8.1.0.77, 8.4.1.50, 8.6.0.163, 8.7.0.84, 8.8.0.121, 8.9.2.26
Uncategorized CUT-RUNTools None 2
Uncategorized cyrus-sasl None 2.1.27
Uncategorized darsync darsync 20240208-7ff09d9
Uncategorized dbCAN dbCAN 11
Uncategorized DBdeployer DBdeployer latest
Uncategorized ddt-perf None 7.0
Uncategorized desmond desmond 2022-2
Uncategorized Dfam Dfam 3.7, 3.8
Uncategorized Dfam-TE-Tools None 1.4
Uncategorized DFTB+ None 19.1
Uncategorized dlib None 19.15
Uncategorized dssp None 2.0.4
Uncategorized edlib edlib 1.2.7
Uncategorized Eigen None 3.3.4
Uncategorized eLSA None 20160907-febe2d7a57c8
Uncategorized ESPResSo None 4.1.4
Uncategorized estout None 20200417-d392e71
Uncategorized fastq_screen_data fastq_screen_data 20220330
Uncategorized freesurfer freesurfer 6.0.0, 7.4.1, 8.1.0-1
Uncategorized funannotate_data funannotate_data 1.8.17
Uncategorized GAAS None 1.2.0
Uncategorized gamess None 20070324R1, 20070324R1-kalkyl, 20101001R1-kalkyl-intel-12.1-mvapich2, 20110818R1-kalkyl-intel12.0-mvapich2, 20170930
Uncategorized gaussian None .g09, .gaussian, .gv, .gv~, g03, g03.d02, g03.e01, g09, g09.a02, g09.c01, g09.d01
Uncategorized gaussview None 5.0.8, .gv, .gv~
Uncategorized gcc None 4.2.3, 4.3.0, 4.3.2, 4.3.2-test, 4.3.2t, 4.4, 4.4.2, 4.4.3, 4.4.4, 4.5.0, 4.6.2, gcc, gcc4.3, gcc4.4, gcc4.5, gcc4.6.tcl
Uncategorized gdb None 11.2
Uncategorized gdc None 2.064.2_4.8, .gdc
Uncategorized genomescope None 1.0.0_d2aefdd
Uncategorized genomescope2.0 None 1.0.0_5034ed4
Uncategorized GetOrganelleDB GetOrganelleDB 0.0.1, 0.0.2
Uncategorized github-cli github-cli 2.63.2
Uncategorized glib glib 2.72.1
Uncategorized GlimmerHMM None 3.0.4
Uncategorized GMP GMP 6.3.0
Uncategorized gnomAD_data gnomAD_data 4.1
Uncategorized go go 1.11.5, 1.20.3
Uncategorized GoogleCloudSDK GoogleCloudSDK 447.0.0, 455.0.0, 528.0.0, 534.0.0
Uncategorized grocsvs None 0.2.5
Uncategorized gromacs-plumed None 2019.4.th
Uncategorized gromacs-saxs None 2020.04-9edbdbc
Uncategorized gstreamer None 0.10.31
Uncategorized GTDB GTDB R04-RS89, R202, R214.1, R220, R226
Uncategorized Gurobi Gurobi 9.5.1, 10.0.2, 11.0.3, 12.0.3
Uncategorized gzip gzip 1.12, 1.13
Uncategorized HG002_Q100_T2T_assembly HG002_Q100_T2T_assembly 0.7
Uncategorized HHsuite None 2.0.16, 2.0.16~
Uncategorized HLA-LA None 1.0.1-20201001-f636b62
Uncategorized hyperqueue hyperqueue 0.18.0
Uncategorized iGenomes None latest
Uncategorized ImageJ ImageJ 1.52j, 1.54g
Uncategorized IMAP None 1.0
Uncategorized Immcantation None 4.0.0
Uncategorized imputor None 20180829
Uncategorized InterOp None 1.1.4
Uncategorized jamovi jamovi 2.3.21
Uncategorized jansson None 2.12
Uncategorized JasPer None 2.0.14
Uncategorized JsonCpp JsonCpp 1.9.5
Uncategorized kermit None 1.0
Uncategorized Kraken_data None latest
Uncategorized KrakenUniq_data KrakenUniq_data latest
Uncategorized KyotoTycoon None stable-20170410
Uncategorized Label-Studio Label-Studio 1.10.1dev
Uncategorized lammps None 29Oct2020_gcc_openmpi, 30Jul2016_intel_mkl, 31Mar2017_gcc_openmpi
Uncategorized libarchive libarchive 3.6.2
Uncategorized libb2 libb2 0.98.1
Uncategorized libdeflate libdeflate 1.19
Uncategorized libicu None 5.2-4
Uncategorized liblzma None 5.2.2
Uncategorized librdf librdf 1.0.17
Uncategorized librsvg None 2.48.4
Uncategorized libSBML libSBML 5.20.2
Uncategorized libtiff libtiff 4.5.0
Uncategorized libvips libvips 8.15.2
Uncategorized lighter None 1.1.1
Uncategorized LLVM None 13.0.1
Uncategorized LoFreq None 2.1.2, .lofreq
Uncategorized longranger-data None 2.0.0, 2.1.0
Uncategorized LRSDAY None 1.5.0
Uncategorized LTR_retriever None 2.9.0
Uncategorized lz4 None 1.9.2
Uncategorized lzo None 2.1
Uncategorized m4 None 1.4.17
Uncategorized mathematica None 11.2
Uncategorized mauve None 2015-02-13
Uncategorized mesos None 1.9.0
Uncategorized metaMATE None 20220327-3cdacd7
Uncategorized metaSNV None 1.0.3, 2.0.1
Uncategorized miniconda2 None 4.5.4
Uncategorized miniconda3 None 4.5.4
Uncategorized miniforge miniforge latest
Uncategorized mlst None 2.12
Uncategorized MMseqs2_data MMseqs2_data 20230125, 20230816, 20240202
Uncategorized Moses Moses 4.0
Uncategorized mp-tools mp-tools latest
Uncategorized MPFR MPFR 4.2.1
Uncategorized mpjexpress None .mpjexpress, v0.38
Uncategorized MultiBUGS None 2.0
Uncategorized MUMPS MUMPS 5.5.0, 5.5.0-hybrid
Uncategorized nanopolish None 0.12.0
Uncategorized ncbi_taxonomy None latest
Uncategorized ncftp None 3.2.6
Uncategorized ncview None 2.1.7, 2.1.7-intel-2019b
Uncategorized ngsF-HMM None 20160614
Uncategorized NINJA None 0.97-cluster_only
Uncategorized NMRPipe None 10.4
Uncategorized nullarbor None 2.0.20180819
Uncategorized octave None 5.1.0
Uncategorized opam opam 2.1.2
Uncategorized OpenCV OpenCV 4.12.0
Uncategorized OpenFOAM None 6, 7, v1912
Uncategorized OpenJPEG OpenJPEG 2.3.0, 2.5.0
Uncategorized openslide openslide 3.4.1, 4.0.0
Uncategorized ORCA None 4.0.1.2, 4.2.1, 5.0.4, 6.0.0, 6.0.1, 6.1.0, .4.0.1.2
Uncategorized panther panther 14.1, 15.0, 17.0, 18.0
Uncategorized paraview None 5.6, 5.9.1, .paraview_noQT, .paraview_noQT~
Uncategorized PCAP None PCAP
Uncategorized pcre2 pcre2 10.42
Uncategorized PGAP None 2022-02-10.build5872
Uncategorized PHP PHP 7.4.32
Uncategorized PhylogicNDT None 2020
Uncategorized phylophlan None 0.99
Uncategorized pigz pigz 2.4, 2.8
Uncategorized plumed None 2.6.0, 2.7.1-gcc
Uncategorized pm-tools pm-tools latest
Uncategorized PyInstaller PyInstaller 6.12.0
Uncategorized python_GIS_packages python_GIS_packages 3.10.8
Uncategorized python_ML_packages python_ML_packages 3.9.5-cpu, 3.9.5-gpu, 3.11.8-cpu, 3.11.8-gpu
Uncategorized PyTorch PyTorch 1.12.0-cpu
Uncategorized qctool None 2-5559450, 2-beta
Uncategorized QoRTs None 1.3.6
Uncategorized QualCoder QualCoder 3.7
Uncategorized QuantumESPRESSO None 6.7MaX-Release
Uncategorized rawcopy None 1.1
Uncategorized RDKit RDKit 20220301
Uncategorized readline None 6.2-11
Uncategorized rfmix None v2
Uncategorized Rosetta None 3.7, 2019.4
Uncategorized RSPt None 2019-08-30, 2020-06-10
Uncategorized rspt None 1951_intel_mkl, 2003_intel_mkl, 2018-03-31_intel_mkl, rspt.tcl
Uncategorized rust rust 1.43.1, 1.67.0, 1.77.0, 1.85.1
Uncategorized sbcl None 1.0.12, .sbcl
Uncategorized scikit-learn None 0.22.1
Uncategorized sda-cli sda-cli 0.1.0, 0.1.3, 0.3.0
Uncategorized SDSL None 2.1.1
Uncategorized Siesta None 4.1-b4, 4.1-MaX-1.0
Uncategorized siesta None 3.2-pl4_intel_mkl, 4.1-b3_intel_mkl, siesta-2018.tcl, siesta.tcl
Uncategorized silva None 128, 132, 138.1
Uncategorized simpleitk None 1.2.4
Uncategorized Singular None 4.1.2
Uncategorized smoove None 0.2.5
Uncategorized snp-sites None 2.4.0
Uncategorized snpEff_data snpEff_data 5.1, 5.2
Uncategorized SourceTracker None 0.9.5
Uncategorized spaceranger-data spaceranger-data 1.0.0, 2020-A, 2024-A
Uncategorized spm None 12
Uncategorized SPRKKR None 7.7.1, 7.7.3
Uncategorized SQuIRE None 0.9.9.9a-beta, 885bf4d-20190301
Uncategorized SRPRISM None 3.2.7
Uncategorized SuiteSparse SuiteSparse 5.8.1, 7.7.0
Uncategorized sumaclust None 1.0.00
Uncategorized sunstudio None 12.1, 12.1u1, .sunstudio
Uncategorized SvABA None 1.1.3-20201112-0f60e36
Uncategorized svviz None 1.6.4
Uncategorized swarm None 1.2.19
Uncategorized SymEngine None 0.7.0
Uncategorized taguette taguette 1.4.1
Uncategorized tapestri None 2.0.1
Uncategorized tcl None 8.6.8
Uncategorized TelomereHunter None 1.0.4
Uncategorized tesseract None 4.1.3
Uncategorized TEtranscripts None 2.2.1
Uncategorized totalview None 8.8.0-2, 8.9.2-0, 8.9.2-2, 8.10.0-1, 8.15.0-15, totalview
Uncategorized turbo None 6.00, 6.01, 6.1, 6.02, .turbo
Uncategorized turbomole None 7.3
Uncategorized umap None 0.3.7
Uncategorized utf8proc None 2.5.0
Uncategorized Vampire Vampire 6.0
Uncategorized vasp None 4.6.34_intel_mkl, 4.6_intel_mkl, 5.2.8_intel_mkl, 5.2.11_intel_mkl, 5.2.12_intel_mkl, 5.2_intel_mkl, 5.3.3_intel_mkl, 5.4.1_intel_mkl, 5.4.1_openmpi_intelmkl, 5.4.4_intel_mkl, .vasp_acml, vasp, vasp.save, vasp.tcl, vasp.tcl_2013, vasp.tcl_2014, vasp.tcl_2017, vasp.tcl_2017_intelmpi, vasp.tcl_2017_openmpi, vasp_new
Uncategorized vasp_acml None 4.6.28, 4.6.34, 4.6.36, .vasp_acml
Uncategorized vasp_goto None 4.6.28, 4.6.34, 4.6.36, .vasp_goto
Uncategorized VMD VMD 1.9.4-alpha-57
Uncategorized VSCodium VSCodium latest
Uncategorized vtk None 6.1.0, .vtk
Uncategorized Whisper Whisper 0.5.1, 20240930
Uncategorized Whisper-gui Whisper-gui 0.1, 0.2, 0.3, 1.0
Uncategorized Whispercpp Whispercpp 1.7.3
Uncategorized WhisperX WhisperX 3.1.1
Uncategorized wine wine 7.0
Uncategorized WPS None 4.1
Uncategorized WPS-geog None 4
Uncategorized WRF None 4.1.3, 4.1.3-dmpar
Uncategorized WRFg None 3.8.1
Uncategorized XCrySDen None 1.5.60, 1.6.2
Uncategorized zig zig 0.9.1, 0.11.0, 0.14.1, 0.15.2
Uncategorized zsh None 5.7.1
Uncategorized zstd zstd 1.5.2