Index

Symbols

10x_bamtofastq (package) 2pg_cartesian (package)

3d-dna (package) 3seq (package)

A

a5-miseq (package) aacon (package) abacas (package) abawaca (package) abeona (package) abismal (package) abnumber (package) abpoa (package) abra2 (package) abricate (package) abritamr (package) abromics_galaxy_json_extractor (package) abundancebin (package) abyss (package) ac (package) ac-diamond (package) acdc (package) aci (package) acms (package) actc (package) adam (package) adapt (package) adapterremoval (package) adapterremovalfixprefix (package) addrg (package) admixtools (package) admixture (package) adpred (package) advntr (package) aegean (package) aeon (package) afpdb (package) afplot (package) afterqc (package) agat (package) agc (package) age-metasv (package) agfusion (package) agg (package) agouti (package) agrvate (package) airr (package) akt (package) albatradis (package) alcor (package) alder (package) ale (package) ale-core (package) alen (package) aletsch (package) alevin-fry (package) alfa (package) alfred (package) align_it (package) aligncov (package) alignlib-lite (package) alignment (package) alignoth (package) alignstats (package) allegro (package) allo (package) altair-mf (package) altamisa (package) alv (package) amap (package) amas (package) amdirt (package) aminoextract (package) amos (package) ampcombi (package) ampd-up (package) amplici (package) amplicon_coverage_plot (package) ampliconclassifier (package) ampliconsuite (package) amplify (package) ampligone (package) amplisim (package) amptk (package) amused (package) anadama2 (package) ananse (package) anansescanpy (package) anansnake (package) anarci (package) ancestry_hmm (package) ancestry_hmm-s (package) anchorwave (package) andi (package) anglerfish (package) angsd (package) aniclustermap (package) anise_basil (package) anndata2ri (package) annembed (package) annonars (package)

annosine2 (package) annotsv (package) annotwg (package) anospp-analysis (package) antarna (package) antismash (package) antismash-lite (package) anvio (package) anvio-minimal (package) any2fasta (package) aodp (package) apoc (package) apollo (package) appspam (package) aprfinder (package) apscale (package) apt-probeset-summarize (package) aptardi (package) apu-label-propagation (package) aquamis (package) aquila (package) aquila_stlfr (package) aquila_umap (package) aquilasv (package) aragorn (package) arb-bio (package) arb-bio-devel (package) arb-bio-tools (package) arborator (package) arboreto (package) arcas-hla (package) archer (package) architeuthis (package) arcs (package) arcsv (package) arem (package) argnorm (package) argo (package) argparse2tool (package) args_oap (package) ariba (package) array-as-vcf (package) arriba (package) art (package) artemis (package) artic (package) artic-porechop (package) artic-tools (package) arvados-cli (package) arvados-cwl-runner (package) arvados-python-client (package) ascat (package) asciigenome (package) asgal (package) ashlar (package) ashleys-qc (package) askocli (package) asn2gb (package) aspera-cli (package) asqcan (package) assemblerflow (package) assembly-scan (package) assembly-stats (package) assembly_finder (package) assemblytics (package) assemblyutility (package) astalavista (package) aster (package) astral-tree (package) atac (package) atactk (package) ataqv (package) athena_meta (package) atlas (package) atlas-data-import (package) atlas-fastq-provider (package) atlas-gene-annotation-manipulation (package) atlas-metadata-validator (package) atropos (package) attotree (package) augur (package) augustus (package) auriclass (package) auspice (package) authentict (package) autodock (package) autogenes (package) autogrid (package) autolog (package) automappa (package) autometa (package) aviary (package) avro-cwl (package) avro-python2 (package) axiome (package) azure-cli (package)

B

b2b-utils (package) b2btools (package) bacgwasim (package) backspinpy (package) bacpage (package) bacphlip (package) bactopia (package) bactopia-assembler (package) bactopia-gather (package) bactopia-py (package) bactopia-qc (package) bactopia-sketcher (package) bactopia-teton (package) bactopia-variants (package) badread (package) baitfisher (package) bakdrive (package) bakta (package) bali-phy (package) balrog (package) baltic (package) bam-readcount (package) bam2fasta (package) bam2fastx (package) bam2plot (package) bamaddrg (package) bamaligncleaner (package) bambamc (package) bamclipper (package) bamcmp (package) bamdash (package) bamhash (package) bamkit (package) bamm (package) bamr (package) bamread (package) bamscale (package) bamsnap (package) bamstats (package) bamsurgeon (package) bamtocov (package) bamtools (package) bamutil (package) bandage (package) bandage_ng (package) banner (package) barcode_splitter (package) baredsc (package) barriers (package) barrnap (package) barrnap-python (package) barseqcount (package) bart (package) basenji (package) basic (package) batch_brb (package) batvi (package) bax2bam (package) bayesase (package) bayescan (package) bayescode (package) bayestyper (package) baypass (package) bazam (package) bbknn (package) bbmap (package) bbmix (package) bcalm (package) bcbio-gff (package) bcbio-nextgen (package) bcbio-nextgen-vm (package) bcbio-prioritize (package) bcbio-rnaseq (package) bcbio-variation (package) bcbio-variation-recall (package) bcbio_monitor (package) bcbreport (package) bcftools (package) bcftools-gtc2vcf-plugin (package) bcftools-snvphyl-plugin (package) bcgtree (package) bcl2fastq-nextseq (package) bcool (package) bcov (package) bctools (package) bd2k-python-lib (package) beacon2-import (package) beacon2-ri-tools (package) beagle (package) beagle-lib (package) beamspy (package) beast (package) beast2 (package) beav (package) bed2gff (package) bed2gtf (package) bedgovcf (package) bedops (package) bedparse (package) bedtk (package) bedtools (package) behst (package) bel-resources (package) bellerophon (package) bellmans-gapc (package) berokka (package) besst (package) bfc (package) bftools (package) bg (package) bgreat (package) bgt (package) bialign (package) biasaway (package) bibliospec (package) bicseq2-norm (package) bicseq2-seg (package) bifrost (package) bigscape (package) bigsi (package) bigslice (package) bigtools (package) binchicken (package) bindash (package) binette (package) binlorry (package) binning_refiner (package) binny (package) binsanity (package) binspreader (package) bio (package) bio-ting (package) bio-vcf (package) bio_assembly_refinement (package) bio_hansel (package) bioawk (package) biobambam (package) biobasehttptools (package) biobb_adapters (package) biobb_amber (package) biobb_analysis (package) biobb_chemistry (package) biobb_cmip (package) biobb_common (package) biobb_cp2k (package) biobb_dna (package) biobb_flexdyn (package) biobb_flexserv (package) biobb_godmd (package) biobb_gromacs (package) biobb_haddock (package) biobb_io (package) biobb_md (package) biobb_mem (package) biobb_ml (package) biobb_model (package) biobb_pdb_tools (package) biobb_pmx (package) biobb_pytorch (package) biobb_remote (package) biobb_structure_checking (package) biobb_structure_manager (package) biobb_structure_utils (package) biobb_vs (package) biobb_wf_mutations (package) bioblend (package) biobloomtools (package) biobox_add_taxid (package) biocamlib (package) biocantor (package) biocode (package) biocommons.seqrepo (package) bioconda-repodata-patches (package) bioconda-utils (package) bioconda2biocontainer (package) bioconductor-a4 (package) bioconductor-a4base (package) bioconductor-a4classif (package) bioconductor-a4core (package) bioconductor-a4preproc (package) bioconductor-a4reporting (package) bioconductor-abarray (package) bioconductor-abseqr (package) bioconductor-absseq (package) bioconductor-acde (package) bioconductor-ace (package) bioconductor-acgh (package) bioconductor-acme (package) bioconductor-adacgh2 (package) bioconductor-adam (package) bioconductor-adamgui (package) bioconductor-adductdata (package) bioconductor-adductomicsr (package) bioconductor-adimpute (package) bioconductor-adme16cod.db (package) bioconductor-adsplit (package) bioconductor-adverscarial (package) bioconductor-affixcan (package) bioconductor-affxparser (package) bioconductor-affy (package) bioconductor-affycomp (package) bioconductor-affycompdata (package) bioconductor-affycontam (package) bioconductor-affycoretools (package) bioconductor-affydata (package) bioconductor-affyhgu133a2expr (package) bioconductor-affyhgu133aexpr (package) bioconductor-affyhgu133plus2expr (package) bioconductor-affyilm (package) bioconductor-affyio (package) bioconductor-affylmgui (package) bioconductor-affymetrixdatatestfiles (package) bioconductor-affymoe4302expr (package) bioconductor-affyplm (package) bioconductor-affyrnadegradation (package) bioconductor-ag.db (package) bioconductor-agcdf (package) bioconductor-agdex (package) bioconductor-aggregatebiovar (package) bioconductor-agilp (package) bioconductor-agimicrorna (package) bioconductor-agprobe (package) bioconductor-ahcytobands (package) bioconductor-ahensdbs (package) bioconductor-ahlrbasedbs (package) bioconductor-ahmassbank (package) bioconductor-ahmeshdbs (package) bioconductor-ahpathbankdbs (package) bioconductor-ahpubmeddbs (package) bioconductor-ahwikipathwaysdbs (package) bioconductor-aims (package) bioconductor-airpart (package) bioconductor-airway (package) bioconductor-alabaster (package) bioconductor-alabaster.base (package) bioconductor-alabaster.bumpy (package) bioconductor-alabaster.files (package) bioconductor-alabaster.mae (package) bioconductor-alabaster.matrix (package) bioconductor-alabaster.ranges (package) bioconductor-alabaster.sce (package) bioconductor-alabaster.schemas (package) bioconductor-alabaster.se (package) bioconductor-alabaster.spatial (package) bioconductor-alabaster.string (package) bioconductor-alabaster.vcf (package) bioconductor-aldex2 (package) bioconductor-alevinqc (package) bioconductor-all (package) bioconductor-allelicimbalance (package) bioconductor-allmll (package) bioconductor-alphabeta (package) bioconductor-alphamissense.v2023.hg19 (package) bioconductor-alphamissense.v2023.hg38 (package) bioconductor-alpine (package) bioconductor-alpinedata (package) bioconductor-alpsnmr (package) bioconductor-altcdfenvs (package) bioconductor-alternativesplicingevents.hg19 (package) bioconductor-alternativesplicingevents.hg38 (package) bioconductor-amaretto (package) bioconductor-amountain (package) bioconductor-ampaffyexample (package) bioconductor-amplican (package) bioconductor-anaquin (package) bioconductor-ancombc (package) bioconductor-aneufinder (package) bioconductor-aneufinderdata (package) bioconductor-anf (package) bioconductor-animalcules (package) bioconductor-annaffy (package) bioconductor-annmap (package) bioconductor-annotate (package) bioconductor-annotationdbi (package) bioconductor-annotationfilter (package) bioconductor-annotationforge (package) bioconductor-annotationhub (package) bioconductor-annotationhubdata (package) bioconductor-annotationtools (package) bioconductor-annotatr (package) bioconductor-anopheles.db0 (package) bioconductor-anota (package) bioconductor-anota2seq (package) bioconductor-antiprofiles (package) bioconductor-antiprofilesdata (package) bioconductor-anvil (package) bioconductor-anvilbilling (package) bioconductor-anvilpublish (package) bioconductor-anvilworkflow (package) bioconductor-apalyzer (package) bioconductor-apcomplex (package) bioconductor-apeglm (package) bioconductor-apl (package) bioconductor-appreci8r (package) bioconductor-arabidopsis.db0 (package) bioconductor-aracne.networks (package) bioconductor-aroma.light (package) bioconductor-arrayexpress (package) bioconductor-arraymvout (package) bioconductor-arrayquality (package) bioconductor-arrayqualitymetrics (package) bioconductor-arrmdata (package) bioconductor-arrmnormalization (package) bioconductor-artms (package) bioconductor-asafe (package) bioconductor-aseb (package) bioconductor-asgsca (package) bioconductor-ashkenazimsonchr21 (package) bioconductor-asics (package) bioconductor-asicsdata (package) bioconductor-aspli (package) bioconductor-assessorf (package) bioconductor-assessorfdata (package) bioconductor-asset (package) bioconductor-assign (package) bioconductor-asurat (package) bioconductor-ataccogaps (package) bioconductor-atacseqqc (package) bioconductor-atacseqtfea (package) bioconductor-atena (package) bioconductor-ath1121501.db (package) bioconductor-ath1121501cdf (package) bioconductor-ath1121501probe (package) bioconductor-atsnp (package) bioconductor-attract (package) bioconductor-aucell (package) bioconductor-autonomics (package) bioconductor-awfisher (package) bioconductor-awst (package) bioconductor-baalchip (package) bioconductor-bacon (package) bioconductor-bader (package) bioconductor-badregionfinder (package) bioconductor-bags (package) bioconductor-ballgown (package) bioconductor-bambu (package) bioconductor-bamsignals (package) bioconductor-bandits (package) bioconductor-bandle (package) bioconductor-banocc (package) bioconductor-barcodetrackr (package) bioconductor-barley1cdf (package) bioconductor-barley1probe (package) bioconductor-basecallqc (package) bioconductor-basespacer (package) bioconductor-basic4cseq (package) bioconductor-basics (package) bioconductor-basicstan (package) bioconductor-basicstarrseq (package) bioconductor-basilisk (package) bioconductor-basilisk.utils (package) bioconductor-batchelor (package) bioconductor-batchqc (package) bioconductor-bayesknockdown (package) bioconductor-bayesspace (package) bioconductor-baynorm (package) bioconductor-bayseq (package) bioconductor-bbcanalyzer (package) bioconductor-bcellviper (package) bioconductor-bcrank (package) bioconductor-bcseq (package) bioconductor-bdmmacorrect (package) bioconductor-beachmat (package) bioconductor-beachmat.hdf5 (package) bioconductor-beadarray (package) bioconductor-beadarrayexampledata (package) bioconductor-beadarraysnp (package) bioconductor-beadarrayusecases (package) bioconductor-beaddatapackr (package) bioconductor-beadsorted.saliva.epic (package) bioconductor-bearscc (package) bioconductor-beat (package) bioconductor-beclear (package) bioconductor-beer (package) bioconductor-benchdamic (package) bioconductor-benchmarkfdrdata2019 (package) bioconductor-beta7 (package) bioconductor-bg2 (package) bioconductor-bgeecall (package) bioconductor-bgeedb (package) bioconductor-bgmix (package) bioconductor-bgx (package) bioconductor-bhc (package) bioconductor-bicare (package) bioconductor-bifet (package) bioconductor-biggr (package) bioconductor-bigmelon (package) bioconductor-bigpint (package) bioconductor-bindingsitefinder (package) bioconductor-bioassayr (package) bioconductor-biobase (package) bioconductor-biobroom (package) bioconductor-biobtreer (package) bioconductor-biocancer (package) bioconductor-biocartaimage (package) bioconductor-biocbaseutils (package) bioconductor-biocbook (package) bioconductor-bioccheck (package) bioconductor-biocdockermanager (package) bioconductor-biocfhir (package) bioconductor-biocfilecache (package) bioconductor-biocgenerics (package) bioconductor-biocgraph (package) bioconductor-biochail (package) bioconductor-biochubsshiny (package) bioconductor-biocio (package) bioconductor-biocneighbors (package) bioconductor-bioconcotk (package) bioconductor-biocor (package) bioconductor-biocparallel (package) bioconductor-biocpkgtools (package) bioconductor-biocset (package) bioconductor-biocsingular (package) bioconductor-biocsklearn (package) bioconductor-biocstyle (package) bioconductor-biocthis (package) bioconductor-biocversion (package) bioconductor-biocviews (package) bioconductor-biocworkflowtools (package) bioconductor-biodb (package) bioconductor-biodbchebi (package) bioconductor-biodbexpasy (package) bioconductor-biodbhmdb (package) bioconductor-biodbkegg (package) bioconductor-biodblipidmaps (package) bioconductor-biodbmirbase (package) bioconductor-biodbncbi (package) bioconductor-biodbnci (package) bioconductor-biodbuniprot (package) bioconductor-biodist (package) bioconductor-bioimagedbs (package) bioconductor-biomart (package) bioconductor-biomartgogenesets (package) bioconductor-biomformat (package) bioconductor-biomm (package) bioconductor-biomvcclass (package) bioconductor-biomvrcns (package) bioconductor-bionar (package) bioconductor-bionero (package) bioconductor-bionet (package) bioconductor-bionetstat (package) bioconductor-bioplex (package) bioconductor-bioqc (package) bioconductor-biosigner (package) bioconductor-biostrings (package) bioconductor-biotip (package) bioconductor-biotmle (package) bioconductor-biotmledata (package) bioconductor-biovizbase (package) bioconductor-birewire (package) bioconductor-biscuiteer (package) bioconductor-biscuiteerdata (package) bioconductor-biseq (package) bioconductor-blacksheepr (package) bioconductor-bladderbatch (package) bioconductor-blima (package) bioconductor-blimatestingdata (package) bioconductor-blma (package) bioconductor-bloodcancermultiomics2017 (package) bioconductor-bloodgen3module (package) bioconductor-bluster (package) bioconductor-bnbc (package) bioconductor-bnem (package) bioconductor-bobafit (package) bioconductor-bodymaprat (package) bioconductor-borealis (package) bioconductor-bovine.db (package) bioconductor-bovine.db0 (package) bioconductor-bovinecdf (package) bioconductor-bovineprobe (package) bioconductor-bprmeth (package) bioconductor-brain (package) bioconductor-brainflowprobes (package) bioconductor-branchpointer (package) bioconductor-breakpointr (package) bioconductor-breakpointrdata (package) bioconductor-breastcancermainz (package) bioconductor-breastcancernki (package) bioconductor-breastcancertransbig (package) bioconductor-breastcancerunt (package) bioconductor-breastcancerupp (package) bioconductor-breastcancervdx (package) bioconductor-brendadb (package) bioconductor-brgedata (package) bioconductor-brgenomics (package) bioconductor-bridgedbr (package) bioconductor-bronchialil13 (package) bioconductor-browserviz (package) bioconductor-bsgenome (package) bioconductor-bsgenome.alyrata.jgi.v1 (package) bioconductor-bsgenome.amellifera.beebase.assembly4 (package) bioconductor-bsgenome.amellifera.ncbi.amelhav3.1 (package) bioconductor-bsgenome.amellifera.ucsc.apimel2 (package) bioconductor-bsgenome.amellifera.ucsc.apimel2.masked (package) bioconductor-bsgenome.aofficinalis.ncbi.v1 (package) bioconductor-bsgenome.athaliana.tair.04232008 (package) bioconductor-bsgenome.athaliana.tair.tair9 (package) bioconductor-bsgenome.btaurus.ucsc.bostau3 (package) bioconductor-bsgenome.btaurus.ucsc.bostau3.masked (package) bioconductor-bsgenome.btaurus.ucsc.bostau4 (package) bioconductor-bsgenome.btaurus.ucsc.bostau4.masked (package) bioconductor-bsgenome.btaurus.ucsc.bostau6 (package) bioconductor-bsgenome.btaurus.ucsc.bostau6.masked (package) bioconductor-bsgenome.btaurus.ucsc.bostau8 (package) bioconductor-bsgenome.btaurus.ucsc.bostau9 (package) bioconductor-bsgenome.btaurus.ucsc.bostau9.masked (package) bioconductor-bsgenome.carietinum.ncbi.v1 (package) bioconductor-bsgenome.celegans.ucsc.ce10 (package) bioconductor-bsgenome.celegans.ucsc.ce11 (package) bioconductor-bsgenome.celegans.ucsc.ce2 (package) bioconductor-bsgenome.celegans.ucsc.ce6 (package) bioconductor-bsgenome.cfamiliaris.ucsc.canfam2 (package) bioconductor-bsgenome.cfamiliaris.ucsc.canfam2.masked (package) bioconductor-bsgenome.cfamiliaris.ucsc.canfam3 (package) bioconductor-bsgenome.cfamiliaris.ucsc.canfam3.masked (package) bioconductor-bsgenome.cjacchus.ucsc.caljac3 (package) bioconductor-bsgenome.cjacchus.ucsc.caljac4 (package) bioconductor-bsgenome.cneoformansvargrubiikn99.ncbi.asm221672v1 (package) bioconductor-bsgenome.creinhardtii.jgi.v5.6 (package) bioconductor-bsgenome.dmelanogaster.ucsc.dm2 (package) bioconductor-bsgenome.dmelanogaster.ucsc.dm2.masked (package) bioconductor-bsgenome.dmelanogaster.ucsc.dm3 (package) bioconductor-bsgenome.dmelanogaster.ucsc.dm3.masked (package) bioconductor-bsgenome.dmelanogaster.ucsc.dm6 (package) bioconductor-bsgenome.drerio.ucsc.danrer10 (package) bioconductor-bsgenome.drerio.ucsc.danrer11 (package) bioconductor-bsgenome.drerio.ucsc.danrer5 (package) bioconductor-bsgenome.drerio.ucsc.danrer5.masked (package) bioconductor-bsgenome.drerio.ucsc.danrer6 (package) bioconductor-bsgenome.drerio.ucsc.danrer6.masked (package) bioconductor-bsgenome.drerio.ucsc.danrer7 (package) bioconductor-bsgenome.drerio.ucsc.danrer7.masked (package) bioconductor-bsgenome.dvirilis.ensembl.dvircaf1 (package) bioconductor-bsgenome.ecoli.ncbi.20080805 (package) bioconductor-bsgenome.gaculeatus.ucsc.gasacu1 (package) bioconductor-bsgenome.gaculeatus.ucsc.gasacu1.masked (package) bioconductor-bsgenome.ggallus.ucsc.galgal3 (package) bioconductor-bsgenome.ggallus.ucsc.galgal3.masked (package) bioconductor-bsgenome.ggallus.ucsc.galgal4 (package) bioconductor-bsgenome.ggallus.ucsc.galgal4.masked (package) bioconductor-bsgenome.ggallus.ucsc.galgal5 (package) bioconductor-bsgenome.ggallus.ucsc.galgal6 (package) bioconductor-bsgenome.gmax.ncbi.gmv40 (package) bioconductor-bsgenome.hsapiens.1000genomes.hs37d5 (package) bioconductor-bsgenome.hsapiens.ncbi.grch38 (package) bioconductor-bsgenome.hsapiens.ncbi.t2t.chm13v2.0 (package) bioconductor-bsgenome.hsapiens.ucsc.hg17 (package) bioconductor-bsgenome.hsapiens.ucsc.hg17.masked (package) bioconductor-bsgenome.hsapiens.ucsc.hg18 (package) bioconductor-bsgenome.hsapiens.ucsc.hg18.masked (package) bioconductor-bsgenome.hsapiens.ucsc.hg19 (package) bioconductor-bsgenome.hsapiens.ucsc.hg19.masked (package) 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(package) bioconductor-yeastnagalakshmi (package) bioconductor-yeastrnaseq (package) bioconductor-ygs98.db (package) bioconductor-ygs98cdf (package) bioconductor-ygs98frmavecs (package) bioconductor-ygs98probe (package) bioconductor-zebrafish.db (package) bioconductor-zebrafish.db0 (package) bioconductor-zebrafishcdf (package) bioconductor-zebrafishprobe (package) bioconductor-zebrafishrnaseq (package) bioconductor-zellkonverter (package) bioconductor-zenith (package) bioconductor-zfpkm (package) bioconductor-zinbwave (package) bioconductor-zlibbioc (package) bioconductor-zygositypredictor (package) bioconvert (package) biodiff (package) biodigest (package) bioexcel_seqqc (package) biofluff (package) bioformats (package) bioframe (package) biogridpy (package) bioinfokit (package) biokit (package) biolib (package) biolite (package) biolite-tools (package) biomaj (package) bionetcomp (package) bionumpy (package) biopet (package) biopet-bamstats (package) biopet-basecounter (package) biopet-extractadaptersfastqc (package) biopet-fastqsplitter (package) biopet-sampleconfig (package) biopet-scatterregions (package) biopet-seattleseqkit (package) biopet-seqstat (package) biopet-validateannotation (package) biopet-validatefastq (package) biopet-validatevcf (package) biopet-vcffilter (package) biopet-vcfstats (package) biophi (package) bioprov (package) biopython.convert (package) biosniff (package) biotdg (package) biothings_client (package) biotradis (package) biotransformer (package) bioutils (package) biowdl-input-converter (package) bird_tool_utils_python (package) bis-snp (package) bis-snp-utils (package) biscot (package) biscuit (package) biskit (package) bismark (package) bitmapperbs (package) blasr (package) blast (package) blast-legacy (package) blast2galaxy (package) blastalign (package) blastbesties (package) blastmining (package) blaze2 (package) blend-bio (package) bleties (package) blksheep (package) blobtools (package) blockbuster (package) blockclust (package) bloocoo (package) bloomfiltertrie (package) blosum (package) bmfilter (package) bmge (package) bmtagger (package) bmtool (package) bohra (package) bold-identification (package) bolt (package) bolt-lmm (package) boms (package) booster (package) boquila (package) borf (package) boutroslabplottinggeneral (package) bowtie (package) bowtie2 (package) bpipe (package) bpp-core (package) bpp-phyl (package) bpp-popgen (package) bpp-seq (package) bracken (package) braid-mrf (package) braker (package) braker2 (package) braker3 (package) brass (package) brawn (package) break-point-inspector (package) breakdancer (package) breakfast (package) breakseq2 (package) breseq (package) brockman-pipeline (package) brooklyn_plot (package) bs-seeker2 (package) bs_call (package) bsmap (package) bte (package) btllib (package) btrim (package) bttcmp (package) bttoxin_digger (package) bttoxin_scanner (package) btyper3 (package) bubblegun (package) bufet (package) bugseq-porechop (package) buildh (package) bumbershoot (package) burrito (package) burrito-fillings (package) burst (package) busco (package) busco_phylogenomics (package) buscolite (package) bustools (package) bwa (package) bwa-aln-interactive (package) bwa-mem2 (package) bwa-meme (package) bwakit (package) bwameth (package) bwapy (package) bwise (package) bwread (package) bx-python (package) bxtools (package)

C

c4counter (package) cactus (package) cadd-scripts (package) cafe (package) cage (package) cagee (package) calcs (package) calib (package) calisp (package) calitas (package) callerpp (package) callingcardstools (package) callstate (package) calour (package) cameo (package) cami-amber (package) cami-opal (package) camlhmp (package) campyagainst (package) campygstyper (package) cancerit-allelecount (package) cannoli (package) canopy (package) cansam (package) cansnper (package) cansnper2 (package) canu (package) canvas (package) cap-mirseq (package) cap3 (package) capc-map (package) capcruncher (package) captus (package) card_trick (package) carna (package) carnac-lr (package) carpedeam (package) cartools (package) carveme (package) cas-offinder (package) cascade-config (package) cassiopee (package) cassiopeia (package) cassis (package) cat (package) catch (package) catch_chimera (package) catfasta2phyml (package) cath-tools (package) cazy_webscraper (package) cblaster (package) ccat (package) ccmetagen (package) ccne (package) ccphylo (package) ccsmeth (package) cctk (package) cd-hit (package) cd-hit-auxtools (package) cdbtools (package) cdhit-reader (package) cdk-inchi-to-svg (package) cdna_cupcake (package) ceas (package) cell-types-analysis (package) cell2cell (package) cellbender (package) cellprofiler (package) cellprofiler-core (package) cellqc (package) cellsnake (package) cellsnp-lite (package) celltypist (package) cellxgene (package) cenote-taker3 (package) centreseq (package) centrifuge (package) centrifuge-core (package) centrifuger (package) centroid_rna_package (package) centrosome (package) cesar (package) cesm (package) cfm (package) cgat-apps (package) cgat-daisy (package) cgat-report (package) cgat-scripts (package) cgatcore (package) cgcloud-lib (package) cgecore (package) cgelib (package) cgmlst-dists (package) cgpbigwig (package) cgranges (package) cgt (package) cgview (package) chado-tools (package) changeo (package) chanjo (package) chap (package) check-sort-order (package) checkatlas (package) checkm-genome (package) checkm2 (package) checkqc (package) checkv (package) chemfp (package) cherri (package) chewbbaca (package) chewiesnake (package) chexalign (package) chexmix (package) chia-rep (package) chicagotools (package) chip-r (package) chips (package) chipseq-greylist (package) chira (package) chiron (package) chisel (package) chiton (package) chopper (package) chorus2 (package) chromap (package) chromatiblock (package) chromeister (package) chromhmm (package) chromimpute (package) chromograph (package) chromosight (package) chromosomer (package) chromsize (package) chronumental (package) chunked-scatter (package) cialign (package) cigar (package) circexplorer (package) circexplorer2 (package) circlator (package) circle-map (package) circle-map-cpp (package) circminer (package) circos (package) circos-tools (package) circrna_finder (package) circtools (package) circularmapper (package) circulocov (package) ciri-full (package) ciriquant (package) cirtap (package) cistrome-ceas (package) cistrome_beta (package) cite-seq-count (package) civicpy (package) cladebreaker (package) cladeomatic (package) clair (package) clair3 (package) clair3-illumina (package) clair3-trio (package) clairvoyante (package) clame (package) clan (package) clark (package) classpro (package) clearcnv (package) clearcut (package) clermontyping (package) clever-toolkit (package) clinker (package) clinker-py (package) clinod (package) clinvar-this (package) clinvar-tsv (package) clipandmerge (package) clipcontext (package) clipkit (package) clippy (package) cliquesnv (package) cloci (package) clonalframeml (package) cloudspades (package) clove (package) clsify (package) clust (package) clustalo (package) clustalw (package) cluster_vcf_records (package) clusterfunk (package) clustergrammer (package)

clusterone (package) clusterpicker (package) clusty (package) cmaple (package) cmappy (package) cmash (package) cmat (package) cmfinder (package) cmip (package) cmph (package) cmsearch_tblout_deoverlap (package) cmseq (package) cmsip (package) cmv (package) cnasim (package) cnmf (package) cnv_facets (package) cnvetti (package) cnvkit (package) cnvnator (package) cnvpytor (package) coast (package) coatran (package) cobra (package) cobra-meta (package) cobs (package) coconet-binning (package) cocoscore (package) codan (package) codingorf (package) codingquarry (package) codoff (package) codonw (package) cofold (package) cogclassifier (package) cogent (package) cogent3 (package) cogtriangles (package) coidb (package) coils (package) coinfinder (package) cojac (package) colabfold (package) collect-columns (package) collect_mgf (package) collectl (package) colombo (package) colorbrewer (package) colord (package) colorid_bv (package) combined-pvalues (package) comebin (package) comet-ms (package) commec (package) commet (package) compalignp (package) comparative-annotation-toolkit (package) compare-reads (package) comparem (package) comparem2 (package) comparems2 (package) compleasm (package) complexcgr (package) comut (package) concoct (package) concoord (package) condiga (package) conduit-assembler (package) confindr (package) conifer (package) conipher (package) connectome-workbench (package) connor (package) consan (package) consel (package) consensify (package) consensusfixer (package) consent (package) consplice (package) constava (package) constax (package) constellations (package) contammix (package) contatester (package) conterminator (package) contignet (package) contigtax (package) contrafold (package) control-freec (package) conus (package) convert_zero_one_based (package) coolbox (package) cooler (package) coolpuppy (package) cooltools (package) coprarna (package) coptr (package) coral (package) core-snp-filter (package) corekaburra (package) corgi (package) corneto (package) correlationplus (package) corset (package) corsid (package) cortex_con (package) cortexpy (package) cosap (package) cosg (package) cosi2 (package) cosigt (package) cospar (package) count_constant_sites (package) counterr (package) cov-lineages (package) coverageanomalyscanner (package) coverm (package) covid-spike-classification (package) covsonar (package) covtobed (package) cpat (package) cpc2 (package) cpgeneprofiler (package) cpinsim (package) cpstools (package) cpt_gffparser (package) cptac (package) crabs (package) cramino (package) craq (package) crass (package) crb-blast (package) crimson (package) crispector (package) crispector2 (package) crisper_recognition_tool (package) crispr_studio (package) crisprbact (package) crispresso (package) crispresso2 (package) crispritz (package) crisprlungo (package) crisprme (package) crnsimulator (package) crocodeel (package) cromshell (package) cromwell-tools (package) croo (package) crossmap (package) crumble (package) crussmap (package) crux-toolkit (package) cryfa (package) cryptkeeper (package) crypto_typer (package) cryptogenotyper (package) csb (package) csblast (package) cstag (package) cstag-cli (package) csvtk (package) ctat-lncrna (package) ctat-metagenomics (package) ctat-mutations (package) cthreepo (package) ctseq (package) ctxcore (package) cufflinks (package) curare (package) cured (package) curesim (package) curlywhirly (package) curves (package) customtkinter (package) cutadapt (package) cutefc (package) cutesv (package) cutqc (package) cuttlefish (package) cvbio (package) cvlr (package) cwl2wdl (package) cycle_finder (package) cyntenator (package) cyrcular (package) cytocad (package) cytoscape (package) cytosnake (package) cytotrace2-python (package) cyushuffle (package) cyvcf2 (package) czlab_perl_lib (package)

D

d4binding (package) d4tools (package) dadaist2 (package) dadaist2-full (package) dagchainer (package) daisysuite (package) dajin2 (package) daligner (package) damageprofiler (package) damasker (package) damidseq_pipeline (package) dammet (package) dammit (package) danpos (package) dapcy (package) dart (package) das_tool (package) dascrubber (package) dashing (package) dastk (package) data_hacks (package) datafunk (package) datma (package) dawg (package) dazz_db (package) dbcan (package) dbcanlight (package) dbg2olc (package) dbghaplo (package) dbgraph (package) dca (package) dcc (package) dcplib (package) ddipy (package) ddocent (package) ddrage (package) debarcer (package) deblur (package) debreak (package) debwt (package) dechat (package) decifer (package) decom (package) decoypyrat (package) dedup (package) deepac (package) deepaccess (package) deepaclive (package) deepacstrain (package) deepacvir (package) deeparg (package) deepbgc (package) deepbinner (package) deepblast (package) deepchopper (package) deepchopper-cli (package) deepdirect (package) deepfplearn (package) deeplc (package) deeplcretrainer (package) deeplift (package) deepmased (package) deepmedic (package) deepmei (package) deepmicro (package) deepmicroclass (package) deepmod (package) deepnog (package) deepsig (package) deepsignal-plant (package) deepstats (package) deepsvr (package) deeptools (package) deeptoolsintervals (package) deepvariant (package) defense-finder (package) defiant (package) degenotate (package) dehomopolymerate (package) delegation (package) delly (package) deltabs (package) deltamsi (package) deltapd (package) demultiplex (package) demultiplexer (package) demuxem (package) demuxlet (package) dendropy (package) denovogear (package) deploid (package) derna (package) desalt (package) desman (package) detonate (package) devider (package) dextractor (package) dfam (package) dfast (package)

dfast_qc (package) dgenies (package) dia_umpire (package) dialign-tx (package) dialign2 (package) diamond (package) diamond_add_taxonomy (package) diapysef (package) dice (package) dicey (package) diego (package) difcover (package) diffacto (package) dig2 (package) digestiflow-cli (package) digestiflow-demux (package) dimet (package) dimspy (package) dinamo (package) dinf (package) dingii (package) dinopy (package) dinosaur (package) dipcall (package) diphase (package) dirseq (package) discasm (package) disco (package) discosnp (package) discovar (package) discovardenovo (package) dist_est (package) distle (package) disty (package) ditasic (package) divvier (package) dkfz-bias-filter (package) dlcpar (package) dligand2 (package) dmbiolib (package) dms (package) dmtools (package) dna-nn (package) dna_features_viewer (package) dnaapler (package) dnacauldron (package) dnachisel (package) dnaio (package) dnamarkmaker (package) dnapi (package) dnarrange (package) dnaweaver (package) dnaweaver_synbiocad (package) dnmtools (package) dnoise (package) dnp-binstrings (package) dnp-corrprofile (package) dnp-diprofile (package) dnp-fourier (package) dnp-mapping (package) dockq (package) dodge (package) domclust (package) domino (package) dosage_score (package) doubletd (package) doubletdetection (package) downpore (package) dr-disco (package) dragmap (package) dragonflye (package) dram (package) drax (package) dreamtools (package) drep (package) drive (package) drop (package) dropest (package) dropkick (package) dropletutils-scripts (package) dropseq_tools (package) drprg (package) drtransformer (package) dsh-bio (package) dsk (package) dsrc (package) dudes (package) duet (package) dunovo (package) duphold (package) duplex-tools (package) duplomap (package) dupre (package) dupsifter (package) dvorfs (package) dwgsim (package) dx-cwl (package) dxpy (package) dxua (package) dysgu (package)

E

e-pcr (package) ea-utils (package) eagle (package) eagle2 (package) earlgrey (package) easel (package) easypqp (package) ebcsgen (package) ebfilter (package) ebi-eva-common-pyutils (package) ebisearch (package) ecmwfapi (package) ecopcr (package) ecoprimers (package) ecopy (package) ectyper (package) edd (package) eden (package) edena (package) edittag (package) edta (package) effectivet3 (package) efishent (package) ega2 (package) egglib (package) eggnog-mapper (package) eigensoft (package) eigenstratdatabasetools (package) eklipse (package) el_gato (package) elastic-blast (package) elasticluster (package) elector (package) elprep (package) ema (package) embassy-phylip (package) embl-api-validator (package) emblmygff3 (package) emboss (package) emerald (package) emeraldbgc (package) emirge (package) emmix (package) emmtyper (package) emptydrops (package) emu (package) emu-pca (package) emvc-2 (package) ena-dl (package) ena-upload-cli (package) ena-webin-cli (package) enabrowsertools (package) enano (package) enasearch (package) encode-blacklist (package) encyclopedia (package) endorspy (package) enrichm (package) ensembl-utils (package) ensembl-vep (package) entrez-direct (package) entrezpy (package)

environment variable LINT_SKIP eoulsan (package) epa-ng (package) ephemeris (package) epic (package) epic2 (package) epicseg (package) epik (package) epimuller (package) episcanpy (package) epiweeks (package) epydoc (package) epytope (package) eqtlbma (package) erds (package) ericscript (package) erne (package) ervdetective (package) escher (package) esimsa (package) eskrim (package) esmre (package) espresso (package) est-sfs (package) estmapper (package) estscan (package) esviritu (package) eta (package) ete2 (package) eternafold (package) etoki (package) eukcc (package) eukfinder (package) eukrep (package) eukulele (package) eva-sub-cli (package) eval (package) evidencemodeler (package) evigene (package) evofold2 (package) evofr (package) examine (package) exomiser-rest-prioritiser (package) exonerate (package) expam (package) expansionhunter (package) expansionhunterdenovo (package) exparna (package) export2graphlan (package) express (package) expressbetadiversity (package) extract-codon-alignment (package) extract-sv-reads (package) extract_fasta_seq (package) extract_fullseq (package) extract_genome_region (package) extract_vcf (package) extracthifi (package) ezaai (package) ezcharts (package) ezclermont (package) ezomero (package)

F

f5c (package) fadapa (package) fade (package) fairease-source (package) fairy (package) falco (package) famsa (package) famseq (package) fanc (package) fann (package) faqcs (package) fargene (package) fast-edit-distance (package) fast5 (package) fast5-research (package) fast5seek (package) fasta-splitter (package) fasta3 (package) fasta_ushuffle (package) fasta_windows (package) fastafunk (package) fastagap (package) fastahack (package) fastaindex (package) fastalite (package) fastani (package) fastaptamer (package) fasten (package) fastg2protlib (package) fastindep (package) fastk (package) fastkit (package) fastlin (package) fastlmm (package) fastme (package) fastml (package) fastmlst (package) fastobo (package) fastool (package) fastools (package) fastp (package) fastphylo (package) fastplong (package) fastq (package) fastq-and-furious (package) fastq-anonymous (package) fastq-count (package) fastq-dl (package) fastq-filter (package) fastq-join (package) fastq-multx (package) fastq-pair (package) fastq-scan (package) fastq-screen (package) fastq-tools (package) fastq_utils (package) fastqc (package) fastqc-rs (package) fastqe (package) fastqmetrics (package) fastqpuri (package) fastqsplitter (package) fastqtk (package) fastquast (package) fastremap-bio (package) fastsimbac (package) fastsimcoal2 (package) fastspar (package) faststructure (package) fasttree (package) fastuniq (package) fastutils (package) fastv (package) fastx_toolkit (package) favites_lite (package) fba (package) fc (package) fcp (package) feature_merge (package) fec (package) feelnc (package) feems (package) fegenie (package) feht (package) fermi (package) fermi-lite (package) fermi2 (package) fermikit (package) ffgc (package) ffindex (package) ffindex-dbkit (package) ffq (package) fgap (package) fgbio (package) fgbio-minimal (package) fgmp (package) fgpyo (package)

fgsv (package) fgwas (package) fibertools-rs (package) ficus (package) fido (package) figaro (package) figtree (package) fiji (package) fiji-max_inscribed_circles (package) fiji-morpholibj (package) fiji-omero_ij (package) fiji-simple_omero_client (package) filtlong (package) find_circ (package) find_differential_primers (package) finemap (package) fineradstructure (package) finestructure (package) fingerprintscan (package) fings (package) firecloud (package) fishtaco (package) fit_nbinom (package) fithic (package) fitter (package) flaimapper (package) flair (package) flams (package) flanker (package) flapjack (package) flash2 (package) flashlfq (package) flexbar (package) flexi-formatter (package) flexiformatter (package) flexiplex (package) flexserv (package) flextaxd (package) flexynesis (package) flight-genome (package) flippyr (package) flock (package) flopp (package) floria (package) flowcraft (package) flumut (package) flumutdb (package) flux-simulator (package) flye (package) fmlrc (package) fmlrc2 (package) fmsi (package) focus (package) foldcomp (package) foldmason (package) foldseek (package) footprint (package) forceatlas2-python (package) forgi (package) forked-path (package) forwardgenomics (package) fpa (package) fq (package) fqgrep (package) fqtk (package) fqtools (package) fqtrim (package) fqzcomp (package) fragbuilder (package) fraggenescan (package) fragpipe (package) fraposa-pgsc (package) frc (package) fred2 (package) freddie (package) freebayes (package) freyja (package) frogs (package) fsa (package) fseq (package) fsm-lite (package) fsnviz (package) fuc (package) fuma (package) funannotate (package) funcannot (package) funnel (package) fununifrac (package) fusion-filter (package) fusion-inspector (package) fusion-report (package) fusioncatcher (package) fusioncatcher-seqtk (package) fwdpp (package) fwdpy (package) fwdpy11 (package) fxtract (package)

G

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gfatools (package) gff2bed (package) gff3sort (package) gff3toddbj (package) gff3toembl (package) gffcompare (package) gfflu (package) gffmunger (package) gffpandas (package) gffread (package) gfftk (package) gffutils (package) gfinisher (package) gfmix (package) gfold (package) ggcaller (package) ggcat (package) ggd (package) gget (package) ghm (package) ghmm (package) ghost-tree (package) ghostx (package) ghostz (package) gia (package) giatools (package) gifrop (package) gimbleprep (package) gimmemotifs (package) gimmemotifs-minimal (package) ginpipepy (package) ginpiper (package) glimmer (package) glimmerhmm (package) glimpse-bio (package) glnexus (package) gloome (package) gmap (package) gmap-fusion (package) gmcloser (package) gmgc-mapper (package) gmm-demux (package) gmsc-mapper (package) gmtk (package) gmwi2 (package) gnali (package) gndiff (package) gneiss (package) gnomic (package) gnparser (package) gnu-getopt (package) gnu-wget (package) gnuplot-py (package) gnuvid (package) go-figure (package) goalign (package) goat (package) goatools (package) goblin (package) gocr (package) godmd (package) goenrichment (package) goetia (package) gofasta (package) gogstools (package) goldrush (package) goleft (package) gopeaks (package) gor_pyspark (package) gorpipe (package) goslimmer (package) gothresher (package) gotohscan (package) gotree (package) gottcha (package) gottcha2 (package) gplas (package) gprofiler-official (package) gqt (package) grabix (package) grafimo (package) graftm (package) grampa (package) grapetree (package) graph2pro-var (package) graph_embed (package) graphaligner (package) graphanalyzer (package) graphbin (package) graphbin2 (package) graphclust-wrappers (package) graphembed (package) graphlan (package) graphlite (package) graphmap (package) graphmb (package) graphprot (package) graphtyper (package) greenhill (package) grenedalf (package) grep (package) gretel (package) gretl (package) grid (package) gridss (package) grimer (package) gromacs_mpi (package) gromacs_py (package) groopm (package) groot (package) group_humann2_uniref_abundances_to_go (package) gs-tama (package) gsalign (package) gsea (package) gseapy (package) gsearch (package) gsmap (package) gsort (package) gtdb_to_taxdump (package) gtdbtk (package) gtf_to_genes (package) gtfparse (package) gtfsort (package) gtftools (package) gtotree (package) gubbins (package) guessmylt (package) guide-counter (package) guidemaker (package) guidescan (package) gum (package) gunc (package) gustaf (package) gvcf-regions (package) gvcf2bed (package) gvcf2coverage (package) gvcfgenotyper (package) gvcftools (package) gw (package) gwama (package) gxf2bed (package) gxf2chrom (package) gxformat2 (package) gzrt (package)

H

h5sparse (package) hackgap (package) haddock_biobb (package) hafez (package) hail (package) hairsplitter (package) halfdeep (package) halla (package) hamip (package) hamroaster (package) hamronization (package) handyreadgenotyper (package) hanselx (package) hap-ibd (package) hap.py (package) hapbin (package) hapcut2 (package) hapflk (package) haphpipe (package) haplink (package) haplocheck (package) haploclique (package) haploconduct (package) haploflow (package) haplogrep (package) haplomap (package) haplotaglr (package) haplotype-lso (package) haploview (package) hapog (package) happer (package) happy-python (package) haproh (package) hapsolo (package) haptools (package) hardklor (package) harmony-pytorch (package) harmonypy (package) harpy (package) harvest-variants (package) harvesttools (package) haslr (package) hat-phasing (package) hatchet (package) haystac (package) haystack_bio (package) hca-matrix-downloader (package) hclust2 (package) hcluster_sg (package) hecatomb (package) heinz (package) heliano (package) helitronscanner (package) helperlibs (package) hera (package) hg-color (package) hgtools (package) hgvs (package) hhsuite (package) hi-corrector (package) hic-straw (package) hic2cool (package) hicap (package) hicbrowser (package) hicexplorer (package) hichipper (package) hicmatrix (package) hicstuff (package) hictk (package) hictkpy (package) hicup (package) hiddendomains (package) hifiasm (package) hifiasm_meta (package) hificnv (package) hifieval (package) hifihla (package) hifive (package) hiline (package) hilinetojuicer (package) hilive2 (package) hint (package) hiphase (package)

hisat2 (package) hisat2-pipeline (package) hitac (package) hitea (package) hits (package) hivtrace (package) hla-asm (package) hla-la (package) hlafreq (package) hlama (package) hlaprofiler (package) hmftools-amber (package) hmftools-bam-tools (package) hmftools-chord (package) hmftools-cobalt (package) hmftools-cuppa (package) hmftools-esvee (package) hmftools-gripss (package) hmftools-isofox (package) hmftools-lilac (package) hmftools-linx (package) hmftools-mark-dups (package) hmftools-neo (package) hmftools-orange (package) hmftools-pave (package) hmftools-peach (package) hmftools-protect (package) hmftools-purple (package) hmftools-redux (package) hmftools-rose (package) hmftools-sage (package) hmftools-sigs (package) hmftools-sv-prep (package) hmftools-virus-interpreter (package) hmmcopy (package) hmmer (package) hmmer2 (package) hmmratac (package) hmnfusion (package) hmnillumina (package) hmnqc (package) hmnrandomread (package) hmntrimmer (package) hmtnote (package) hocort (package) homer (package) homoeditdistance (package) homopolish (package) hopla (package) hops (package) hormon (package) hostile (package) hotspot3d (package) how_are_we_stranded_here (package) howdesbt (package) hpcblast (package) hpsuissero (package) hr2 (package) hs-blastn (package) hsdecipher (package) hsdfinder (package) hts-nim-tools (package) htsbox (package) htseq (package) htseq-clip (package) htsinfer (package) htslib (package) htsqualc (package) htstream (package) hubward (package) hubward-all (package) hulk (package) humann (package) humid (package) hybkit (package) hybpiper (package) hybracter (package) hybran (package) hydra-multi (package) hylight (package) hypercluster (package) hyphy (package) hypo (package) hypro (package)

I

ibdmix (package) ibdne (package) ibdseq (package) ice-cream (package) iced (package) icescreen (package) icfree-ml (package) iclipro (package) icount (package) icount-mini (package) icqsol (package) idba (package) idba_subasm (package) ideas (package) idemux (package) idemuxcpp (package) idr (package) idr-py (package) ifcnv (package) ifeature (package) ig-checkfcs (package) ig-checkflowtypes (package) ig-flowtools (package) igblast (package) igblast-parser (package) igda-script (package) igdiscover (package) igfinder (package) igor_vdj (package) igphyml (package) igv (package) igv-reports (package) igvtools (package) illumina-cleanup (package) illumina-interop (package) illumina-utils (package) illuminate (package) illumiprocessor (package) im-pipelines (package) im2deep (package) ima3 (package) imctools (package) imfusion (package) immuneml (package) imods (package) impg (package) impute2 (package) imseq (package) imsindel (package) indelfixer (package) infernal (package) influx-si-data-manager (package) influx_si (package) inforna (package) inheritance (package) inmoose (package) insilicoseq (package) insilicosv (package) inspector (package) instanovo (package)

instrain (package) insurveyor (package) intarna (package) integron_finder (package) intemap (package) interleafq (package) intermine (package) interproscan (package) interval-binning (package) intervalstats (package) intervaltree_bio (package) intervene (package) ionquant (package) iow (package) ipapy2 (package) iphop (package) ipk (package) iptkl (package) ipyrad (package) ipython-cluster-helper (package) iqkm (package) iqtree (package) ir (package) irep (package) irescue (package) irf (package) irfinder (package) irida-linker (package) irida-sistr-results (package) irida-staramr-results (package) irida-uploader (package) irissv (package) irma (package) isa-rwval (package) isaac4 (package) isafe (package) isatools (package) iseq (package) isescan (package) islandpath (package) ismapper (package) isocor (package) isonclust (package) isonclust2 (package) isoncorrect (package) isonform (package) isoplot (package) isoquant (package) isoseq (package) isoseq3 (package) isospecpy (package) ispcr (package) itero (package) itol-config (package) itolapi (package) itolparser (package) itsx (package) itsxpress (package) iucn_sim (package) iva (package) ivar (package)

J

jaeger-bio (package) jaffa (package) jali (package) jalview (package) jamm (package) jannovar-cli (package) jarvis (package) jarvis3 (package) jasmine (package) jasminesv (package) jass (package) jass_preprocessing (package) jbrowse (package) jbrowse2 (package) jcast (package) jccirc (package) jclusterfunk (package) jcvi (package)

je-suite (package) jgoslin (package) jms-metabolite-services (package) jmztab-m (package) jobtree (package) jolytree (package) jpredapi (package) jronn (package) json_collect_data_source (package) julia-divand (package) jupiterplot (package) jupyterngsplugin (package) justbackoff (package) jvarkit (package) jvarkit-bam2svg (package) jvarkit-bam2wig (package) jvarkit-bamstats04 (package) jvarkit-msa2vcf (package) jvarkit-wgscoverageplotter (package)

K

k-slam (package) k8 (package) kaiju (package) kakscalculator2 (package) kalamari (package) kalign2 (package) kalign3 (package) kallisto (package) kaptive (package) karect (package) kart (package) karyopype (package) kat (package) kb-python (package) kcalign (package) kcounter (package) kegalign-full (package) kegg-pathways-completeness (package) keggcharter (package) kestrel (package) kfoots (package) kggseq (package) kgwasflow (package) khipu-metabolomics (package) khmer (package) kid (package) kin (package) kinamine_y_shaker (package) kinex (package) king (package) kingfisher (package) kinship-read (package) kinsimriboswitch (package) kipoi (package) kipoi-utils (package) kipoi_veff (package) kipoiseq (package) kissplice (package) kitsune (package) kiwidist (package) kleborate (package) kma (package) kmasker (package) kmc (package) kmcp (package)

kmd_hmdb_api_client (package) kmer-db (package) kmer-jellyfish (package) kmercamel (package) kmerfinder (package) kmergenie (package) kmerinshort (package) kmerstream (package) kmertools (package) kmtricks (package) kneaddata (package) knock-knock (package) knot (package) knot-asm-analysis (package) knotinframe (package) kobas (package) kodoja (package) koeken (package) kofamscan (package) komb (package) konezumiaid (package) kopt (package) kosudoku (package) kounta (package) koverage (package) kpal (package) kpop (package) kraken (package) kraken-biom (package) kraken-ea (package) kraken2 (package) krakentools (package) krakenuniq (package) krakmeopen (package) krbalancing (package) krocus (package) krona (package) kronik (package) kronos (package) kseqpp (package) ksnp (package) kssd (package) ksw (package) kwip (package) kyototycoon (package)

L

labrat (package) lace (package) lamassemble (package) lambda (package) lamps (package) lap (package) last (package) lastz (package) latch (package) latentstrainanalysis (package) lca (package) lcfit (package) ldblockshow (package) lddt (package) ldhelmet (package) ldsc (package) learnmsa (package) leehom (package) lefse (package) legsta (package) lemur (package) lepwrap (package) leviathan (package) leviosam (package) leviosam2 (package) lexicmap (package) lexmapr (package) liana (package) lib-pod5 (package) libarbdb (package) libbambamc (package) libbigwig (package) libcifpp (package) libdivsufsort (package) libgab (package) libgenome (package) libgff (package) libgtextutils (package) libidn (package) libis (package) libmaus2 (package) libmems (package) libmuscle (package) libopenms (package) libsbml (package) libsequence (package) libshorah (package) libssw (package) libstatgen (package) liftoff (package) liftofftools (package) liftover (package) lightassembler (package) lighter (package) lightning (package) lightstringgraph (package) lima (package) linearfold (package)

linearpartition (package) linkage2allegro (package) links (package) linkstats (package) LINT_SKIP liqa (package) liquorice (package) lisa2 (package) lissero (package) liv_utils (package) livekraken (package) lja (package) lmas (package) localhgt (package) locarna (package) locidex (package) locityper (package) locus_processing (package) lofreq (package) logomaker (package) lohhla (package) lollipop (package) longcallr_nn (package) longestrunsubsequence (package) longgf (package) longphase (package) longqc (package) longreadsum (package) longshot (package) longstitch (package) lorax (package) lordec (package) lordfast (package) lorikeet (package) lorikeet-genome (package) lorma (package) lotus2 (package) lra (package) lrez (package) lrphase (package) lrsim (package) lrtk (package) lrzip (package) ls-gkm (package) lsabgc (package) lsc (package) lsd (package) ltr_finder (package) ltr_finder_parallel (package) ltr_harvest_parallel (package) ltr_retriever (package) luciphor2 (package) lukasa (package) lumpy-sv (package) lumpy-sv-minimal (package) lusstr (package) lyner (package) lz-ani (package) lz4-bin (package)

M

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N

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O

oakvar (package) oarfish (package) oases (package) oatk (package) obitools (package) obonet (package) occultercut (package) ococo (package) ocrad (package) octopus (package) odamnet (package) odgi (package) odose (package) ogdf (package) olga (package) oligoarrayaux (package) oligomap (package) oligotyping (package) olivar (package) omamer (package) omark (package) omero-py (package) omssa (package) oncocnv (package) oncofuse (package) oncogemini (package) oncopipe (package) oncotator (package) onehot2seq (package) ont-fast5-api (package) ont-modkit (package) ont-tombo (package) ont_vbz_hdf_plugin (package) ontime (package) onto2nx (package)

ope (package) open-cravat (package) opencontactcli (package) openduck (package) openmg (package) openms (package) openms-meta (package) openms-thirdparty (package) opentargets (package) opentargets-urlzsource (package) opentargets-validator (package) opfi (package) opsin (package) optbuild (package) optimir (package) optitype (package) optplus (package) orfanage (package) orfipy (package) orfm (package) orfquant (package) orientagraph (package) orientationpy (package) orna (package) orsum (package) orthanq (package) orthodb (package) orthofinder (package) orthofisher (package) orthoflow (package) orthologer (package) orthomcl (package) osra (package) ostir (package) outrigger (package)

P

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(package) pbmm2 (package) pbpigeon (package) pbptyper (package) pbsim (package) pbsim2 (package) pbsim3 (package) pbskera (package) pbstarphase (package) pbsv (package) pbtk (package) pbwt (package) pcaone (package) pcasuite (package) pdbx (package) pdfkit (package) pdivas (package) peakachu (package) peakhood (package) peakranger (package) peaks2utr (package) peaksql (package) peakzilla (package) pear (package) pecat (package) ped_parser (package) peddy (package) pedesigner (package) peekseq (package) peer (package) pegas (package) pegasusio (package) pegasuspy (package) peglit (package) pegs (package) peka (package) pepgenome (package) pepnovo (package) pepquery (package) pepr (package) pepsirf (package) peptide-shaker (package) peptides (package) perbase (package) percolator (package) peregrine-2021 (package) perl-aceperl (package) perl-acme-damn (package) perl-algorithm-cluster (package) perl-algorithm-dependency (package) perl-algorithm-munkres (package) perl-aliased (package) 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perl-statistics-caseresampling (package) perl-statistics-descriptive (package) perl-statistics-distributions (package) perl-statistics-frequency (package)

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Q

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R

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tiptoft (package) tir-learner (package) tirmite (package) tissuumaps (package) titan-gc (package) titanomics (package) tksm (package) tmalign (package) tmb (package) tmhg (package) tn93 (package) tntblast (package) tobias (package) toil (package) tolkein (package) tooldistillator (package) toolshed (package) topas (package) tophat (package) tophat-recondition (package) toulligqc (package) tower-cli (package) tpmcalculator (package) tpp (package) tqdist (package) tr-trimmer (package) tracegroomer (package) tracer (package) trackhub (package) tracknado (package) trackplot (package) tracs (package) tracy (package) traitar (package) transabyss (package) transanno (package) transannot (package) transcomb (package) transcov (package) transcriptm (package) transdecoder (package) transgenescan (package) transindel (package) transit (package) translate-gard (package) translatorx (package) translig (package) transposcope (package) transposonpsi (package) transrate (package) transrate-tools (package) transtermhp (package) trawler (package) tree-qmc (package) treebest (package) treecluster (package) treekin (package) treemaker (package) treemix (package) treeqmc (package) treerecs (package) treesap (package) treesapp (package) treeshrink (package) treesimulator (package) treeswift (package) treetime (package) trf (package) trgt (package) tribal (package) triform2 (package) trim-galore (package) trim_isoseq_polya (package) trimadap (package) trimal (package) trimap (package) trimmomatic (package) trimnami (package) trimns_vgp (package) trinculo (package) trinity (package) trinotate (package) triqler (package) tritimap (package) trnanalysis (package) trnascan-se (package) troika-tb (package) trtools (package) trumicount (package) trust4 (package) truvari (package) trycycler (package) tsebra (package) tspex (package) tssar (package) tssv (package) tttrlib (package) turbocor (package) twobitreader (package) twopaco (package) tximport-scripts (package) tyto (package)

U

ucsc-addcols (package) ucsc-ameme (package) ucsc-autodtd (package) ucsc-autosql (package) ucsc-autoxml (package) ucsc-avecols (package) ucsc-axtchain (package) ucsc-axtsort (package) ucsc-axtswap (package) ucsc-axttomaf (package) ucsc-axttopsl (package) ucsc-bamtopsl (package) ucsc-bedclip (package) ucsc-bedcommonregions (package) ucsc-bedcoverage (package) ucsc-bedextendranges (package) ucsc-bedgeneparts (package) ucsc-bedgraphpack (package) ucsc-bedgraphtobigwig (package) ucsc-bedintersect (package) ucsc-beditemoverlapcount (package) ucsc-bedjointaboffset (package) ucsc-bedpileups (package) ucsc-bedremoveoverlap (package) ucsc-bedrestricttopositions (package) ucsc-bedsort (package) ucsc-bedtobigbed (package) ucsc-bedtogenepred (package) ucsc-bedtopsl (package) ucsc-bedweedoverlapping (package) ucsc-bigbedinfo (package) ucsc-bigbednameditems (package) ucsc-bigbedsummary (package) ucsc-bigbedtobed (package) ucsc-bigmaftomaf (package) ucsc-bigpsltopsl (package) ucsc-bigwigaverageoverbed (package) ucsc-bigwigcat (package) ucsc-bigwigcluster (package) ucsc-bigwigcorrelate (package) ucsc-bigwiginfo (package) ucsc-bigwigmerge (package) ucsc-bigwigsummary (package) ucsc-bigwigtobedgraph (package) ucsc-bigwigtowig (package) ucsc-blasttopsl (package) ucsc-blat (package) ucsc-catdir (package) ucsc-catuncomment (package) ucsc-cell-browser (package) ucsc-chainantirepeat (package) ucsc-chainbridge (package) ucsc-chaincleaner (package) ucsc-chainfilter (package) ucsc-chainmergesort (package) ucsc-chainnet (package) ucsc-chainprenet (package) ucsc-chainscore (package) ucsc-chainsort (package) ucsc-chainsplit (package) ucsc-chainstitchid (package) ucsc-chainswap (package) ucsc-chaintoaxt (package) ucsc-chaintopsl (package) ucsc-chaintopslbasic (package) ucsc-checkagpandfa (package) ucsc-checkcoveragegaps (package) ucsc-checkhgfindspec (package) ucsc-checktablecoords (package) ucsc-chopfalines (package) ucsc-chromgraphfrombin (package) ucsc-chromgraphtobin (package) ucsc-clustergenes (package) ucsc-coltransform (package) ucsc-countchars (package) ucsc-crtreeindexbed (package) ucsc-crtreesearchbed (package) ucsc-dbsnoop (package) ucsc-dbtrash (package) ucsc-endsinlf (package) ucsc-estorient (package) ucsc-expmatrixtobarchartbed (package) ucsc-faalign (package) ucsc-facmp (package) ucsc-facount (package) ucsc-fafilter (package) ucsc-fafiltern (package) ucsc-fafrag (package) ucsc-fanoise (package) ucsc-faonerecord (package) ucsc-fapolyasizes (package) ucsc-farandomize (package) ucsc-farc (package) ucsc-fasize (package) ucsc-fasomerecords (package) ucsc-fasplit (package) ucsc-fastqstatsandsubsample (package) ucsc-fastqtofa (package) ucsc-fatofastq (package) ucsc-fatotab (package) ucsc-fatotwobit (package) ucsc-fatovcf (package) ucsc-fatrans (package) ucsc-featurebits (package) ucsc-fetchchromsizes (package) ucsc-findmotif (package) ucsc-gaptolift (package) ucsc-genepredcheck (package) ucsc-genepredfilter (package) ucsc-genepredhisto (package) ucsc-genepredsinglecover (package) ucsc-genepredtobed (package) ucsc-genepredtobiggenepred (package) ucsc-genepredtofakepsl (package) ucsc-genepredtogtf (package) ucsc-genepredtomafframes (package) ucsc-genepredtoprot (package) ucsc-gensub2 (package) ucsc-getrna (package) ucsc-getrnapred (package) ucsc-gff3togenepred (package) ucsc-gff3topsl (package) ucsc-gmtime (package) ucsc-gtftogenepred (package) ucsc-headrest (package) ucsc-hgbbidblink (package) ucsc-hgfakeagp (package) ucsc-hgfindspec (package) ucsc-hggcpercent (package) ucsc-hggoldgapgl (package) ucsc-hgloadbed (package) ucsc-hgloadchain (package) ucsc-hgloadmaf (package) ucsc-hgloadnet (package) ucsc-hgloadout (package) ucsc-hgloadoutjoined (package) ucsc-hgloadsqltab (package) ucsc-hgloadwiggle (package) ucsc-hgspeciesrna (package) ucsc-hgsqldump (package) ucsc-hgtrackdb (package) ucsc-hgvstovcf (package) ucsc-htmlcheck (package) ucsc-hubcheck (package) ucsc-hubpubliccheck (package) ucsc-ixixx (package) ucsc-lavtoaxt (package) ucsc-lavtopsl (package) ucsc-ldhggene (package) ucsc-liftover (package) ucsc-liftup (package)

ucsc-linestora (package) ucsc-localtime (package) ucsc-mafaddirows (package) ucsc-mafaddqrows (package) ucsc-mafcoverage (package) ucsc-maffetch (package) ucsc-maffilter (package) ucsc-maffrag (package) ucsc-maffrags (package) ucsc-mafgene (package) ucsc-mafmefirst (package) ucsc-maforder (package) ucsc-mafranges (package) ucsc-mafsinregion (package) ucsc-mafspecieslist (package) ucsc-mafspeciessubset (package) ucsc-mafsplit (package) ucsc-mafsplitpos (package) ucsc-maftoaxt (package) ucsc-maftobigmaf (package) ucsc-maftopsl (package) ucsc-maftosnpbed (package) ucsc-maketablelist (package) ucsc-maskoutfa (package) ucsc-mktime (package) ucsc-mrnatogene (package) ucsc-netchainsubset (package) ucsc-netclass (package) ucsc-netfilter (package) ucsc-netsplit (package) ucsc-netsyntenic (package) ucsc-nettoaxt (package) ucsc-nettobed (package) ucsc-newprog (package) ucsc-newpythonprog (package) ucsc-nibfrag (package) ucsc-nibsize (package) ucsc-oligomatch (package) ucsc-overlapselect (package) ucsc-para (package) ucsc-parafetch (package) ucsc-parahub (package) ucsc-parahubstop (package) ucsc-paranode (package) ucsc-paranodestart (package) ucsc-paranodestatus (package) ucsc-paranodestop (package) ucsc-parasol (package) ucsc-parasync (package) ucsc-paratestjob (package) ucsc-positionaltblcheck (package) ucsc-pslcat (package) ucsc-pslcdnafilter (package) ucsc-pslcheck (package) ucsc-psldropoverlap (package) ucsc-pslfilter (package) ucsc-pslhisto (package) ucsc-pslliftsubrangeblat (package) ucsc-pslmap (package) ucsc-pslmappostchain (package) ucsc-pslmrnacover (package) ucsc-pslpairs (package) ucsc-pslpartition (package) ucsc-pslpostarget (package) ucsc-pslpretty (package) ucsc-pslrc (package) ucsc-pslrecalcmatch (package) ucsc-pslreps (package) ucsc-pslscore (package) ucsc-pslselect (package) ucsc-pslsomerecords (package) ucsc-pslsort (package) ucsc-pslsortacc (package) ucsc-pslstats (package) ucsc-pslswap (package) ucsc-psltobed (package) ucsc-psltobigpsl (package) ucsc-psltochain (package) ucsc-psltopslx (package) ucsc-pslxtofa (package) ucsc-qacagplift (package) ucsc-qactoqa (package) ucsc-qactowig (package) ucsc-qatoqac (package) ucsc-randomlines (package) ucsc-rasqlquery (package) ucsc-ratolines (package) ucsc-ratotab (package) ucsc-rmfadups (package) ucsc-rowstocols (package) ucsc-spacedtotab (package) ucsc-splitfile (package) ucsc-splitfilebycolumn (package) ucsc-sqltoxml (package) ucsc-stringify (package) ucsc-subchar (package) ucsc-subcolumn (package) ucsc-taillines (package) ucsc-tdbquery (package) ucsc-texthistogram (package) ucsc-ticktodate (package) ucsc-tolower (package) ucsc-toupper (package) ucsc-transmappsltogenepred (package) ucsc-trfbig (package) ucsc-twobitdup (package) ucsc-twobitinfo (package) ucsc-twobitmask (package) ucsc-twobittofa (package) ucsc-validatefiles (package) ucsc-validatemanifest (package) ucsc-websync (package) ucsc-wigcorrelate (package) ucsc-wigtobigwig (package) ucsc-wordline (package) ucsc-xmlcat (package) ucsc-xmltosql (package) ufcg (package) ultra_bioinformatics (package) ultraheatmap (package) ultraplex (package) umap (package) umi-transfer (package) umi_tools (package) umicollapse (package) umis (package) umitools (package) unassigner (package) unfazed (package) unicycler (package) unifrac (package) unifrac-binaries (package) unikmer (package) unikseq (package) unimap (package) uniprot (package) unitas (package) unitem (package) unitig-caller (package) unitig-counter (package) unmerge (package) upd (package) updio (package) upimapi (package) uropa (package) usalign (package) uscdc-datasets-sars-cov-2 (package) usearch (package) usher (package) ushuffle (package) uvaia (package) uvp (package)

V

vadr (package) vafator (package) valet (package) validate-fasta-database (package) vamb (package) vamos (package) vapor (package) var-agg (package) varcode (package) varda2-client (package) vardict (package) vardict-java (package) varfish-annotator-cli (package) varfish-cli (package) varfish-server-worker (package) vargeno (package) variabel (package) variant_tools (package) variantbam (package) variantbreak (package) variantmap (package) varifier (package) varlociraptor (package) varscan (package) vartrix (package) varvamp (package) vase (package) vawk (package) vcf-annotator (package) vcf-validator (package) vcf2circos (package) vcf2cytosure (package) vcf2db (package) vcf2genome (package) vcf2maf (package) vcf2maf-umccr (package) vcf2parquet (package) vcf2tsvpy (package) vcf2variants (package) vcfanno (package) vcfbub (package) vcfdist (package) vcferr (package) vcfkit (package) vcflatten (package) vcflib (package) vcfphasesets (package) vcfpy (package) vcfpy2 (package) vcfsamplecompare (package) vcfsim (package) vcftoolbox (package) vcftools (package) vclean (package) vclust (package) vcontact2 (package) vcontact3 (package) vdjer (package)

vechat (package) velocyto.py (package) velvet (package) velvet-sc (package) vembrane (package) venndata (package) verifybamid (package) verifybamid2 (package) verifyidintensity (package) verkko (package) verse (package) versionix (package) verticall (package) veryfasttree (package) vg (package) vgan (package) vibrant (package) viennarna (package) viewbs (package) viguno (package) viloca (package) viral_consensus (package) viralflye (package) viralmsa (package) viralverify (package) viramp-hub (package) virchip (package) virema (package) vireosnp (package) virheat (package) virmet (package) viroconstrictor (package) viromeqc (package) virsorter (package) virstrain (package) virulencefinder (package) virulign (package) virusrecom (package) visceral-evaluatesegmentation (package) visor (package) vispr (package) vitap (package) vkmz (package) vmatch (package) vnl (package) voyager (package) vphaser2 (package) vpolo (package) vqsr_cnn (package) vrhyme (package) vsclust (package) vsearch (package) vsnp (package) vsnp3 (package) vt (package) vtools (package) vulcan (package) vvv2_display (package)

W

w4mclassfilter (package) w4mclstrpeakpics (package) wade (package) wally (package) watchdog-wms (package) wbuild (package) wdltool (package) weeder (package) wes-service-client (package) wfa2-lib (package) wfmash (package) wg-blimp (package) wgatools (package) wgd (package) wgdi (package) wgfast (package) wgs-assembler (package) wgs2ncbi (package)

wgsim (package) wham (package) whatsgnu (package) whatshap (package) wheezy.template (package) whokaryote (package) wiggletools (package) winnowmap (package) wise2 (package) wisecondorx (package) wisestork (package) wlogdate (package) woltka (package) workspace (package) wtdbg (package) wtforms-alchemy (package) wtforms-components (package) wub (package)

X

xatlas (package) xbioc (package) xcftools (package) xclone (package) xengsort (package) xhmm (package) xmatchview (package) xmlbuilder (package) xmltramp2 (package) xpclr (package)

xpore (package) xpressplot (package) xs-sim (package) xsd (package) xtandem (package) xtea (package) xtermcolor (package) xunit-wrapper (package) xxmotif (package) xyalign (package)

Y

yacht (package) yacrd (package) yaggo (package) yaha (package) yahmm (package) yahs (package) yak (package)

yamda (package) yanagiba (package) yanc (package) yapc (package) yara (package) yass (package) ymp (package)

Z

zagros (package) zamp (package) zarp (package) zavolan-multiqc-plugins (package) zdb (package) zerone (package)

zga (package) zgtf (package) zifa (package) zmwfilter (package) zol (package) zorro (package) zpca (package)