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- 10x_bamtofastq
- 3seq
- a5-miseq
- abawaca
- abeona
- abismal
- abpoa
- abricate
- abruijn
- abundancebin
- abyss
- adam
- adapterremoval
- adapterremovalfixprefix
- addrg
- admixtools
- admixture
- advntr
- aenum
- aeon
- afplot
- afterqc
- agc
- age-metasv
- agfusion
- agg
- akt
- albatradis
- alder
- ale
- ale-core
- alen
- aletsch
- alevin-fry
- alfred
- alignlib-lite
- alignstats
- allegro
- allhic
- amap
- amplici
- amptk
- amused
- ancestry_hmm
- ancestry_hmm-s
- anchorwave
- andi
- anise_basil
- ansible
- ant
- antismash
- anvio
- anvio-minimal
- any2fasta
- apoc
- appspam
- aprfinder
- apu-label-propagation
- aragorn
- arb-bio
- arb-bio-devel
- arb-bio-tools
- archer
- architeuthis
- arcs
- arem
- argh
- argparse
- argutils
- aria2
- ariba
- arriba
- art
- artemis
- artic-porechop
- artic-tools
- arvados-cwl-runner
- arvados-python-client
- ascat
- asciigenome
- askocli
- asn2gb
- asqcan
- assemblerflow
- assembly-scan
- assembly-stats
- assemblycomparator2
- assemblyutility
- astalavista
- aster
- atac
- atactk
- ataqv
- athena_meta
- atlas
- atropos
- augustus
- auspice
- authentict
- autodock
- autodock-vina
- autogrid
- autolog
- avro
- avro-cwl
- avro-python2
- avro-python3
- awscli
- axiome
- azure-cli
- b2b-utils
- b2btools
- backports.csv
- backports.unittest_mock
- backspinpy
- baitfisher
- bali-phy
- balrog
- bam-readcount
- bam2fastx
- bambamc
- bamclipper
- bamcmp
- bamhash
- bamread
- bamscale
- bamstats
- bamtocov
- bamtools
- bamutil
- barriers
- barrnap
- barrnap-python
- basic
- bats
- batvi
- bax2bam
- bayescode
- bayestyper
- bbknn
- bbmap
- bcalm
- bcbio-nextgen
- bcbio-nextgen-vm
- bcbio-prioritize
- bcbio-rnaseq
- bcbio-variation
- bcbio-variation-recall
- bcbio_monitor
- bcbiogff
- bcbreport
- bcftools
- bcl2fastq-nextseq
- bcool
- bcov
- bctools
- bd2k-python-lib
- beagle
- beagle-lib
- beast
- beast2
- bed2gff
- bed2gtf
- bedgovcf
- bedops
- bedtk
- bedtools
- behst
- bellmans-gapc
- berokka
- besst
- bfc
- bgt
- bialign
- bicseq2-norm
- bicseq2-seg
- bifrost
- bigtools
- bindash
- binsanity
- binspreader
- bio-vcf
- bio_assembly_refinement
- bio_hansel
- bioawk
- biobb_mem
- bioblend
- biocamlib
- bioconda-utils
- bioconductor-a4base
- bioconductor-a4core
- bioconductor-a4preproc
- bioconductor-a4reporting
- bioconductor-abadata
- bioconductor-abaenrichment
- bioconductor-absseq
- bioconductor-acde
- bioconductor-acgh
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- bioconductor-adacgh2
- bioconductor-adam
- bioconductor-adsplit
- bioconductor-affxparser
- bioconductor-affy
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- bioconductor-affycompatible
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- bioconductor-affydata
- bioconductor-affyexpress
- bioconductor-affyilm
- bioconductor-affyio
- bioconductor-affypdnn
- bioconductor-affyplm
- bioconductor-affyrnadegradation
- bioconductor-agdex
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- bioconductor-aims
- bioconductor-alabaster.base
- bioconductor-alabaster.matrix
- bioconductor-aldex2
- bioconductor-alevinqc
- bioconductor-all
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- bioconductor-amaretto
- bioconductor-amountain
- bioconductor-amplican
- bioconductor-analysispageserver
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- bioconductor-annaffy
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- bioconductor-annotationfuncs
- bioconductor-annotationhub
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- bioconductor-aroma.light
- bioconductor-arrayexpress
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- bioconductor-arrayquality
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- bioconductor-arraytools
- bioconductor-arrmdata
- bioconductor-arrmnormalization
- bioconductor-asafe
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- bioconductor-bayespeak
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- bioconductor-bsgenome
- bioconductor-bsgenome.celegans.ucsc.ce10
- bioconductor-bsgenome.celegans.ucsc.ce6
- bioconductor-bsgenome.dmelanogaster.ucsc.dm3
- bioconductor-bsgenome.drerio.ucsc.danrer7
- bioconductor-bsgenome.ecoli.ncbi.20080805
- bioconductor-bsgenome.hsapiens.ucsc.hg18
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- bioconductor-bsgenome.hsapiens.ucsc.hg38
- bioconductor-bsgenome.mmusculus.ucsc.mm10
- bioconductor-bsgenome.mmusculus.ucsc.mm9
- bioconductor-bsseq
- bioconductor-bubbletree
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- bioconductor-bumphunter
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- dammet
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- datamash
- dawg
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- dialign-tx
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- embassy-phylip
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- emboss
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- emvc-2
- enano
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- encode-blacklist
- ensembl-vep
- entrez-direct
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- epa-ng
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- equirep
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- flask-admin
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- flask-bower
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- flexbar
- flexiplex
- flexserv
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- fmsi
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- footprint
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- fpa
- fq
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- fqtools
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- fraggenescan
- frc
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- fwdpp
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- fxtract
- ga4ghmongo
- gadem
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- galaxy-ie-helpers
- galaxy-lib
- galaxy-ml
- galaxy-ops
- galaxy-parsec
- galaxy-util
- galaxy_sequence_utils
- gambit
- gangstr
- gap2seq
- gappa
- gargammel
- gargammel-slim
- garnet
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- gbintk
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- gecode
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- gembs
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- gemini
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- genbank
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- geneimpacts
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- genepender
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- genform
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- genologics
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- genomedata
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- genomestrip
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- genomicassertions
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- genonets
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- get_fasta_info
- get_homologues
- get_mnv
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- ggplot
- ghmm
- ghostscript
- ghostx
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- gimmemotifs-minimal
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- glimpse-bio
- glob2
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- gmap-fusion
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- gnuplot
- gnuplot-py
- goalign
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- gocr
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- gofasta
- goldrush
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- google-api-python-client
- google-cloud-sdk
- google-sparsehash
- gopeaks
- gotree
- gprofiler-official
- gqt
- grabix
- graftm
- graph_embed
- graphaligner
- graphclust-wrappers
- graphicsmagick
- graphlan
- graphlite
- graphmap
- grep
- gretel
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- grid
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- groot
- group_humann2_uniref_abundances_to_go
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- gtf_to_genes
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- gubbins
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- guidescan
- gum
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- gvcfgenotyper
- gvcftools
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- gzrt
- haddock_biobb
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- hapflk
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- hclust2
- hcluster_sg
- helperlibs
- hera
- hesslab-gambit
- hgtools
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- hi-corrector
- hic-straw
- hic2cool
- hicbrowser
- hicexplorer
- hichipper
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- hictkpy
- hicup
- hifiasm
- hifiasm_meta
- hifive
- hiline
- hisat2
- hits
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- hlaprofiler
- hmmcopy
- hmmer
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- homer
- hotspot3d
- howdesbt
- hr2
- htsbox
- htseq
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- htstream
- httpretty
- hubward
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- hulk
- humann2
- humid
- hybpiper
- hylight
- hyphy
- ibdmix
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- ibdseq
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- iclipro
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- idr
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- ig-checkfcs
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- igv
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- illumina-cleanup
- illuminate
- illumiprocessor
- ima3
- imfusion
- immuneml
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- impg
- impute2
- indelfixer
- infernal
- infinity
- inheritance
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- insurveyor
- intarna
- intermine
- intervals
- intervalstats
- intervaltree_bio
- intervene
- involucro
- iow
- ipk
- ipython-cluster-helper
- iqtree
- ir
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- irf
- irfinder
- irida-linker
- irida-sistr-results
- isatools
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- islandpath
- isonclust2
- isoseq3
- isospecpy
- ispcr
- itero
- itk
- itsx
- itsxpress
- iva
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- jaffa
- jali
- jalview
- jamm
- jannovar-cli
- java-jdk
- jbrowse
- jcvi
- je-suite
- jellyfish
- jemalloc
- jq
- json_collect_data_source
- junit-xml
- justbackoff
- jvarkit-bam2svg
- jvarkit-bam2wig
- k8
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- kakscalculator2
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- kmercamel
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- kneaddata
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- krbalancing
- krocus
- krona
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- lca
- ldblockshow
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- lexicmap
- lexmapr
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- libidn
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- liftover
- lightassembler
- lighter
- lightning
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- linkage2allegro
- links
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- livekraken
- localhgt
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- longgf
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- lumpy-sv
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- magicblast
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- maker
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- mammal
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- mantis_pfa
- mapad
- mapcaller
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- mapdia
- mapping-iterative-assembler
- mappy
- mapsembler2
- mapseq
- marge
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- matchtigs
- mathstats
- matlock
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- maxbin2
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- mdust
- me-pcr
- medaka
- medicc2
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- medusa-data-fusion
- megadepth
- megahit
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- megapath-nano
- melt
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- mendelscan
- meneco
- menetools
- mercat
- merfin
- mergevcf
- merlin
- merquryfk
- meryl
- meta-apo
- meta-neuro
- meta-sparse
- metabat2
- metabuli
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- metagene_annotator
- metagenome-atlas
- metagraph
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- metameta
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- metaphlan2
- metaquant
- metaseq
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- metasnv
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- metavelvet-annois
- metavelvet-sl-feature-extraction
- metawatt
- metawrap
- metaxa
- metfrag
- methpipe
- methyldackel
- methylextract
- methylpy
- metilene
- mfold
- mgems
- mgf-formatter
- mgikit
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- mglex
- mgltools
- mhap
- mhcnuggets
- micall-lite
- microbecensus
- micropita
- microview
- midas
- miga
- migmap
- migraine
- mikado
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- minced
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- minepy
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- minimac4
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- minimock
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- miniprot-boundary-scorer
- minirmd
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- minvar
- minys
- mir-prefer
- mira-moods
- miranda
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- mirge
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- mmseqs2
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- mmtf-python
- mmult
- mnnpy
- moabs
- mob_suite
- mobster
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- mockinbird
- modeltest-ng
- modle
- moff
- molpopgen-analysis
- moments
- monocle3-cli
- monovar
- moods
- mosaicatcher
- mosaik
- mosdepth
- mothur
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- motifscan
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- mpa-portable
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- ms2pip
- ms2rescore-rs
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- msgf_plus
- msisensor-pro
- msms
- msprime
- msproteomicstools
- msstitch
- mstmap
- msweep
- mtbseq
- mudskipper
- mugsy
- multiqc
- multiqc-bcbio
- multirnafold
- multiz
- mumemto
- mummer
- mummer4
- munkres
- muscle
- muse
- music
- musicc
- mustang
- mutscan
- mutyper
- mvicuna
- mvp
- mwga-utils
- mygene
- mykrobe
- myriad
- mysql-connector-c
- mysqlclient
- mzml2isa
- mztosqlite
- naf
- namfinder
- nanoblaster
- nanocomp
- nanofilt
- nanoget
- nanolyse
- nanomath
- nanoplot
- nanoplotter
- nanopolish
- nanopore_simulation
- nanoq
- nanoqc
- nanoraw
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- nanosim-h
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- nanosplit
- nanostat
- nanosv
- nanovar
- nasp
- ncbi-amr
- ncbi-amrfinderplus
- ncbi-genome-download
- ncbi-ngs-sdk
- ncbi-stxtyper
- ncbi-vdb
- ncfp
- ncls
- ncrf
- ndex-python
- necat
- nedbit-features-calculator
- needletail
- nemo
- nemo-age
- neptune
- nerpa
- netcdf-metadata-info
- netifaces
- netreg
- networkxgmml
- neurodocker
- newick_utils
- nextalign
- nextclade
- nextclade2
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- nextdenovo
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- nextgenmap
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- ngless
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- ngmerge
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- ngslca
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- ngsplotdb-ngsplotdb-hg19
- ngsutils
- niemagraphgen
- nim-falcon
- ninja-nj
- nlstradamus
- nmrglue
- nmrml2isa
- nmrpro
- nohuman
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- nonpareil
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- nordic
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- nose-capturestderr
- novoalign
- novobreak
- novoplasty
- np-likeness-scorer
- npyscreen
- nrpys
- nseg
- ntcard
- ntedit
- nthits
- ntjoin
- ntlink
- ntroot
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- ntstat
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- nucamino
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- nucleoatac
- nudup
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- nvc
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- oarfish
- oases
- oatk
- oauth2client
- obitools
- ococo
- ocrad
- octopus
- odose
- ogdf
- oligoarrayaux
- oligomap
- oligotyping
- omssa
- oncofuse
- oncotator
- ont-fast5-api
- ont-modkit
- ont-tombo
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