The living corpus, on the record.

Broad analysis utilities across the bioinformatics corpus.

3D3dflexcatalog entryABabmapcatalog entryAUabsci unlockedcatalog entryACactccatalog entryADafp deepcatalog entryAGagbasecatalog entryAGaggrescan3dcatalog entryANagro ntcatalog entryAIaizynthfindercatalog entryALaldycatalog entryALalicecatalog entryALalphaflowcatalog entryALalphalinkcatalog entryALalphamutcatalog entryAFamber ff19sbtoolAMameliecatalog entryA0aminoacid 0catalog entryAMampacatalog entryAMamvlcatalog entryANannovarcatalog entryAPapalogcatalog entryAPapbstoolAPapecatalog entryARarcscatalog entryARaribacatalog entryARarimacatalog entryASascatcatalog entryAOaso oligo designcatalog entryASaspergilluspmcatalog entryATatomflowcatalog entryAUauspicecatalog entryAUautopvs1catalog entryBAbadgercatalog entryBAbageltoolbagel2catalog entrybcftoolscatalog entryBEbeagle5catalog entryBIbed intersectcatalog entryBSbed sortcatalog entryBEbedtoolstoolBEbetterbodiescatalog entryBFbig-fishtoolBDbmfm dnacatalog entryBOborzoicatalog entryBObotanic0catalog entryBRbreedrcatalog entryBRbrmscatalog entryBRbrms rcatalog entryBTbtfbscatalog entryCSc2s scalecatalog entryCAcaddcatalog entryCAcaduceuscatalog entryCAcafe5catalog entryCAcamsolcatalog entryCAcamsoltoolCAcarpcatalog entryCOcas offindercatalog entryCAcas13dcatalog entryCTcassavabase toolscatalog entryCAcastptoolCFcath funfamstoolCAcavertoolCAcavityplustoolCCccp4toolCOcell o1catalog entryCTcell type barcatalog entryCEcellamacatalog entrycellbendercatalog entryC2celle 2catalog entryCEcellfmcatalog entryCEcellforgecatalog entrycelloraclecatalog entryCEcellplmcatalog entryCAcellranger-aggrtoolCMcellranger-mkreftoolCMcellranger-multitoolCEcelltagcatalog entrycelltypistcatalog entryCEcellvitcatalog entryCGcgenfftoolC1chai 1catalog entryCHchai1catalog entryCHchai2catalog entryCHchatmolcatalog entryCHcheckm2catalog entryCHchemistry42catalog entryCHchemnetcatalog entryCHchempropcatalog entryCHchiefcatalog entryCHchimeraxcatalog entryCHchoppercatalog entryCHchrom3dtoolCHchromacatalog entrychromapcatalog entryCHchromfoundcatalog entryCHchromvarcatalog entryCIcibersortxcatalog entryCIcistemtoolCIciviccatalog entryclair3catalog entryCDclape dbcatalog entryCEclr espcatalog entryCLclustergrammer2catalog entryCOcodonfmcatalog entryCOcolabdesigncatalog entryCOcoloccatalog entryCOcolvarstoolcometcatalog entryCOcompasscatalog entryCOconchcatalog entryCOconfrankcatalog entryCWconnectome workbenchcatalog entryCOconodlcatalog entryCVconsensus viewercatalog entryCOconsurfcatalog entryCMcontact mapcatalog entryCFcontrol freeccatalog entryCOcontrolfreeccatalog entryCOcooltoolscatalog entryCOcoottoolCOcopracatalog entryCPcpaccatalog entryCPcpcprotcatalog entryCScrispr-screen-exectoolCRcrispresso2catalog entryCRcrisprwarecatalog entryCRcrlcatalog entryCRcropsrcatalog entryCRcrossabsensecatalog entryCRcryptositetoolCTcutandrun toolscatalog entrycutesvcatalog entryCYcyriuscatalog entryCYcytocatalog entryCDcytoscape desktopcatalog entryD3d3lmcatalog entryDAdarkcatalog entryDAdarwin abotypercatalog entryDBdarwin bacasscatalog entryDBdarwin bactmapcatalog entryDBdarwin borzoicatalog entryDCdarwin caduceuscatalog entryDCdarwin cellpaintingcatalog entryDCdarwin cellplmcatalog entryDCdarwin chai1catalog entryDCdarwin chromacatalog entryDCdarwin chromap toolcatalog entryDCdarwin comet toolcatalog entryDCdarwin coproidcatalog entryDCdarwin createpanelrefscatalog entryDCdarwin createtaxdbcatalog entryDDdarwin deepmicrocatalog entryDDdarwin deepmutscancatalog entryDDdarwin detaxizercatalog entryDDdarwin diseasemodulediscoverycatalog entryDDdarwin dropcatalog entryDEdarwin easypqp toolcatalog entryDEdarwin evexplorercatalog entryDEdarwin evo2catalog entryDEdarwin evodiffcatalog entryDGdarwin generator genomiccatalog entryDGdarwin genie2catalog entryDGdarwin genomicrelatednesscatalog entryDGdarwin gninacatalog entryDGdarwin grovercatalog entryDHdarwin hadgecatalog entryDLdarwin longrarediseasecatalog entryDMdarwin mcmicrocatalog entryDMdarwin meerpipecatalog entryDMdarwin metaboignitercatalog entryDMdarwin metapepcatalog entryDMdarwin metatdenovocatalog entryDMdarwin mitodetectcatalog entryDMdarwin molkartcatalog entryDMdarwin mothur toolcatalog entryDMdarwin mrnetcatalog entryDMdarwin multivicatalog entryDNdarwin nanostringcatalog entryDNdarwin nascentcatalog entryDOdarwin omnicellcatalog entryDOdarwin oncoanalysercatalog entryDOdarwin openmmcatalog entryDPdarwin pacvarcatalog entryDPdarwin pathogensurveillancecatalog entryDPdarwin percolator toolcatalog entryDPdarwin pgdbcatalog entryDPdarwin phaseimputecatalog entryDPdarwin primateai3dcatalog entryDPdarwin prostt5catalog entryDPdarwin pyprophet toolcatalog entryDRdarwin rinalmocatalog entryDSdarwin sage toolcatalog entryDSdarwin scdownstreamcatalog entryDSdarwin scvelo toolcatalog entryDSdarwin signac toolcatalog entryDSdarwin skyline toolcatalog entryDSdarwin slingshot toolcatalog entryDSdarwin spliceaicatalog entryDSdarwin squidpy toolcatalog entryDTdarwin tangramcatalog entryDTdarwin taxpastacatalog entryDUdarwin ucecatalog entryDDddgembcatalog entryDDddimcatalog entryDDddpmcatalog entryDEdecompdiffcatalog entryDEdeepchemcatalog entryDEdeepconpred2catalog entryDEdeepconsensuscatalog entryDEdeepcrisprcatalog entryDEdeepfricatalog entryDEdeeploccatalog entryDEdeepmicrocatalog entryDEdeeprelaxcatalog entryDEdeepsacatalog entryDEdeepsptoolDEdeepstabpcatalog entrydeeptoolscatalog entrydellycatalog entryDTdi tassercatalog entryDIdiffabcatalog entryDIdiffforcecatalog entryDIdiffpepbuildercatalog entryDIdifftfcatalog entryDIdiscdiffcatalog entryDNdnagrindercatalog entryDNdncon2catalog entryDOdoradocatalog entryDOdoubletfindercatalog entryDPdplmcatalog entryDPdplm2catalog entryDAdrgn aicatalog entryDRdropcatalog entryDLdti lmcatalog entryDUdualnetgocatalog entryDYdyna1catalog entryDYdynaabcatalog entryDYdynamonttoolDYdynversecatalog entryEAeager2catalog entryEReagle rccatalog entryEAeagle2catalog entryeasypqpcatalog entryedtacatalog entryEReffectsize rcatalog entryEHehdncatalog entryEReigen1 regulatory fmcatalog entryEKeitlem kineticscatalog entryEMeman2toolEPenigma protocolscatalog entryENenoptcatalog entryENenrichrcatalog entryEVensembl vepcatalog entryEPepiagecatalog entryEPepiccatalog entryEPepiscancatalog entryERerrattoolEIeval infra servicecatalog entryEVevcouplingscatalog entryEVevecatalog entryevocatalog entryevo 2 40bcatalog entryevo 2 7bcatalog entryevo designercatalog entryE7evo2 7bcatalog entryEVevodiffcatalog entryEVevomilcatalog entryEXexselfrlcatalog entryFGfabric genomicscatalog entryFAfacetscatalog entryFAfaisscatalog entryFAfarmcpucatalog entryFAfateidcatalog entryFMfep md enginecatalog entryfgseacatalog entryFTfhir toolscatalog entryFIfinemapcatalog entryFFfinemap fmcatalog entryFIfireprotasrcatalog entryflaircatalog entryflair lrcatalog entryFLflashlfqtoolFLflashweavecatalog entryFLflexsbddcatalog entryFLflexynesiscatalog entryFPfpocketcatalog entryFRfragllamacatalog entryFRframeflowcatalog entryFRfranklincatalog entryFRfrasercatalog entryFRfraser2catalog entryFTftmaptoolGAgafftoolGAgalacticacatalog entryGPgalaxy platformcatalog entryGTgalaxy-toolshedcatalog entryGAgatortroncatalog entrygctacatalog entryGEgearnetcatalog entryGBgene barcatalog entryGEgenejepacatalog entryGEgeneptcatalog entryGCgenerative chemistrycatalog entryGGgenerator genomiccatalog entryGGgenerator genomic v2catalog entryGEgenesiscatalog entryGAgenetic algorithmcatalog entryGEgenie2catalog entryGEgenmolcatalog entryGEgenotifycatalog entryGEgenslmcatalog entryGIgitiiicatalog entryGLglmcatalog entryGMgmx mmpbsacatalog entryGMgmx mmpbsatoolGNgninacatalog entryGNgnpscatalog entryGEgo enrichmentcatalog entryGOgolemcatalog entrygpn brassicalescatalog entryGRgraspcatalog entryGRgrasrcatalog entryGRgridsscatalog entryGRgromacscatalog entryGRgromacstoolGRgrovercatalog entryGSgsdesigncatalog entryGSgseapycatalog entryGTgtdbcatalog entryGTgtdbtkcatalog entryGUgubbinscatalog entryHOh optimus 0catalog entryHAhaloclasscatalog entryHAhapnecatalog entryHChceacatalog entryHEhelicalcatalog entryHEhetddicatalog entryHNhifi nncatalog entryHWhistopathology wsi fmcatalog entryHJhjrsscatalog entryHFhl7 fhir toolscatalog entryHEho-epistasiscatalog entryHOhomercatalog entryHBhoomd bluetoolHNhopfield networks 2020catalog entryHChorvath clockcatalog entryHOhovernetcatalog entryHNhpo network viewercatalog entryHThpo toolkitcatalog entryIAianalyzercatalog entryIEiev2molcatalog entryIMimgmcatalog entryINinspiiredcatalog entryINinstructcellcatalog entryINinstructplmcatalog entryintervarcatalog entryIPipc2toolIDipsc disease screencatalog entryISisoldetoolIVivarcatalog entryJAjaegercatalog entryJAjasminecatalog entryKAkalasantytoolKBkbetcatalog entryKEkeapcatalog entryKNknomolcatalog entryKAksea appcatalog entryLAlammpstoolLAlangcellcatalog entryLAlarrycatalog entryLAlazyslidetoolLBlbstercatalog entryLDldhubcatalog entryLDldpred2catalog entryLElefsecatalog entryLEleidentoolLIlibinventcatalog entryLIlifelinescatalog entryLIliftoffcatalog entryLClims connectorcatalog entryLClingshu cellcatalog entryLIlipidcreatorcatalog entryLIliricalcatalog entryLWlizard wizardcatalog entryLLllpscatalog entryLGlm gvpcatalog entryLMlme4catalog entryLOlofreqcatalog entryLMloinc mappercatalog entryLRlongitudinal rwd enginecatalog entryLOlongphasecatalog entryLUlucaonecatalog entryLUlukepicatalog entryM6m6anetcatalog entryMAmaaslin2catalog entryMAmacs2catalog entryMCmacs2-callpeaktoolmageckcatalog entrymageck-beta-binomialtoolmageck-rratoolMAmahloolcatalog entryMAmammalcatalog entrymantacatalog entryMAmartinitoolMAmarugototoolMAmashcatalog entryMAmasifcatalog entryMAmastcatalog entryMAmatchmstoolMBmbpcatalog entryMCmcmicrocatalog entryMCmcsacatalog entryMCmcscanxcatalog entryMDmdgencatalog entryMEmedakacatalog entryMEmeditroncatalog entryMEmegamolbartcatalog entryMTmerip toolscatalog entryMEmerqurycatalog entryMEmetaboanalystcatalog entryMEmetaforcatalog entryMRmetafor rcatalog entryMEmetalcatalog entryMEmetgemcatalog entryMGmetl globalcatalog entryMHmhnfscatalog entryMImicroreactcatalog entryMImidas2catalog entryMTmidas2 toolcatalog entryMSmif stcatalog entryMIminimac4catalog entryMImissforestcatalog entryMImixcrcatalog entryMImixomicscatalog entryMRmixomics rcatalog entryMVmixomics v2catalog entryMMmmaplecatalog entryMMmmveccatalog entryMOmodkitcatalog entryMNmodkit nanocatalog entrymofa pluscatalog entryMOmofa2catalog entryMOmokapottoolMOmoletoolMOmoleculenettoolMOmolercatalog entryMOmolfeatcatalog entryMOmolgpkatoolMOmolhitcatalog entryMOmolincatalog entryMOmolmimcatalog entryMOmolmvccatalog entryMOmolpathcatalog entryMOmolphenixcatalog entryMOmolsnappercatalog entryMOmordredtoolMOmothracatalog entryMOmothurcatalog entryMCmrd ctdna monitorcatalog entryMRmrnetcatalog entryMRmrtrix3catalog entryMSmsbuddytoolMSmsfraggercatalog entryMUmulancatalog entryMEmulti evolvecatalog entryMUmultiqctoolMUmultiversegcatalog entryMUmultivicatalog entryMUmummichogcatalog entryMUmuoncatalog entryMUmupiprcatalog entryMUmuscatcatalog entryNAnaeprocatalog entryNAnamdtoolNAnanofiltcatalog entryNAnaturelmcatalog entryNEneoapredcatalog entryN2netsurfp 2 0catalog entryNEneuromapscatalog entryNEnextcladecatalog entryNEnextmolcatalog entryNSnf schemacatalog entryNTnifti to mghcatalog entryNVnt v3catalog entryNTntv3catalog entryNVnucleus viewercatalog entryNVnvmolkitcatalog entryOPo1 previewcatalog entryOMomicade4catalog entryODomni dnacatalog entryOMomnicellcatalog entryOMomninacatalog entryOPopenfecatalog entryOPopenmmcatalog entryOPopenmmtoolOMopenmm mdcatalog entryOSopenphenom s 16catalog entryOPoptitypecatalog entryOUoutridercatalog entryPGp gemmacatalog entryPLp llama2catalog entryPLp llama3catalog entryPMp mistralcatalog entryP2p2rankcatalog entryPApaintorcatalog entryPApalantircatalog entryPApangolincatalog entryPAparmcatalog entryPApathogenwatchcatalog entryPEpepgladcatalog entryPEpepinventcatalog entryPEpepmlmcatalog entryPEpepnetcatalog entrypercolatorcatalog entryPEperseuscatalog entrypertpycatalog entryPGpggbcatalog entryPHpharaotoolPHpharmcatcatalog entryPHpharmertoolPHphastercatalog entryPHphenixcatalog entryPRphenix realspacetoolPHphenogeniuscatalog entryPIphenomics imaging fmcatalog entryPHphenopacketscatalog entryPTphenopackets toolscatalog entryPHphosrcatalog entryPIpicrust2catalog entryPKpkalmcatalog entryPKpkasolvercatalog entryPLplacercatalog entryPLplanemotoolPCplant caduceuscatalog entryPDplant dnamambacatalog entryPLplantbimoecatalog entryPLplantcaduceuscatalog entryPLplantstoolPLplaptcatalog entryPLplasmidfindercatalog entryPHplatform health monitorcatalog entryplink2catalog entryPLpllamacatalog entryPLpltnumcatalog entryPLplumedtoolPLpmlm largecatalog entryPOpocketflowcatalog entryPOpocketgencatalog entryPOpoetcatalog entryPOpointfindercatalog entryPOpointsitetoolPPppflowcatalog entryPRprealgprocatalog entryPCprepr ctcatalog entryPRprimateai3dcatalog entryPPpro primecatalog entryPUprocalm uniref9bcatalog entryPRprochecktoolPRprodigytoolPRprofam1catalog entryPRprogencatalog entryPRprogen2catalog entryPBprogen2 basecatalog entryPXprogen2 xlargecatalog entryPRprogenycatalog entryPRprollamacatalog entryPRpropermabcatalog entryPRprosatoolPRprosstcatalog entryPRprostt5catalog entryPTprot t5 xlcatalog entryPRprot2tokencatalog entryPRprotasr2catalog entryPRprotbfncatalog entryPRprotemcatalog entryPRprotenixcatalog entryPMprotenix minicatalog entryPVprotenix v2catalog entryPRprotrekcatalog entryPRprotssncatalog entryPRprotstcatalog entryPRprott3catalog entryPXprott5 xl u50catalog entryPXprott5 xxlcatalog entryPXprott5 xxl bfdcatalog entryPGprov gigapathcatalog entryPSpsmccatalog entryPMptm mambacatalog entryPUpurplecatalog entryPVpvactoolscatalog entryPWpwrcatalog entryPRpwr rcatalog entryPXpxdesigncatalog entryPVpyclone vicatalog entryPYpymbartoolPYpymccatalog entryPYpypgxcatalog entryPVpypgx v2catalog entryPYpyprophetcatalog entryPYpyteisercatalog entryPYpyteomicstoolQOqc overviewcatalog entryQSqc summarycatalog entryQUqupathtoolRArabonacatalog entryRAragtagcatalog entryRCrctdcatalog entryREreasyncatalog entryRErecon3dcatalog entryREregeniecatalog entryR4reinvent 4catalog entryREreinvent4catalog entryRErelatecatalog entryRErennaissancecatalog entryRDrepertoire developabilitycatalog entryREresfinderfgcatalog entryRAresp aicatalog entryRMrethink-mol-designcatalog entryRErevelcatalog entryRFrfmixcatalog entryRFrfmix2catalog entryRGrgicatalog entryRIribocodecatalog entryRIribologcatalog entryRIrinalmocatalog entryRXrita xlargecatalog entryRErose enhancercatalog entryROroyalgamblecatalog entryROroyalmdcatalog entryRPrpactcatalog entryRRrrblupcatalog entryRFrs-fishtoolRCrwe comparator armcatalog entrySMsaambe memcatalog entrySAsachscatalog entrySMsafe molcatalog entrysagecatalog entrySAsaigecatalog entrySEsaint expresscatalog entrySAsapcatalog entrySAsaprotcatalog entrySPscenic pluscatalog entrySCscibcatalog entrySCscirpycatalog entrySCscispacycatalog entrySCscope2catalog entrySCscprint2catalog entrySCscreenpro2catalog entryscrubletcatalog entrySDscuba dcatalog entryscvelocatalog entrySEscverse ecosystemcatalog entrySEseamooncatalog entrySEselscancatalog entrySEseveruscatalog entrySHshapeit4catalog entrySHshapemolcatalog entrySPsi plmcatalog entrySIsignaccatalog entryS6signalp 6 0catalog entrySIsimrcatalog entrySIsiriuscatalog entrySKskatcatalog entryskylinecatalog entryskyline dailycatalog entryskyline toolcatalog entrySLsleuthcatalog entrySLslingshotcatalog entrySTsmi tedcatalog entrySMsminatoolSMsmoovecatalog entrysniffles2catalog entrySOso3lrcatalog entrySOsoftmolcatalog entrySMsoluble membrane proxycatalog entrysoupxcatalog entrySOsourmashcatalog entrySPspacemakecatalog entrySXspark xcatalog entrySPspider2catalog entrySPspieceasicatalog entryspliceaicatalog entrySPspotcatalog entrySQsqanti3catalog entrysquidpycatalog entrySPss plmcatalog entrySSssacatalog entrySTstackcatalog entrySTstancatalog entrySTsteinbockcatalog entrySTstellarpgxcatalog entrySTstemnetcatalog entrySTstereopycatalog entrySTstofmcatalog entrySTstripycatalog entrySUsurvminercatalog entrySUsusiecatalog entrySFsusie fmcatalog entrySVsvabacatalog entrySWswitchfindercatalog entrySYsynteractcatalog entrySYsynthsegcatalog entryTAtabixcatalog entryTAtangramcatalog entryTAtaptoolTAtartaruscatalog entryTAtassel5catalog entryTAtawfncatalog entryTDtdccatalog entryTEteddycatalog entryTHthermobasecatalog entryTHthermomutdbcatalog entryTOtobiascatalog entryTTtobias tfcatalog entryTOtopaztoolTRtransfewcatalog entryTRtrendcastcatalog entryTVtribe v2catalog entryTRtrinitycatalog entryTStutorial sandboxcatalog entryTXtxgemmacatalog entryT2txgemma 27bcatalog entryT2txgemma 2bcatalog entryT9txgemma 9bcatalog entryUCucecatalog entryUDudandticatalog entryUDudsmprotcatalog entryUMuni molcatalog entryUNunirepcatalog entryVAvarsomecatalog entryvepcatalog entryVEverify3dtoolVEvespacatalog entryVEvespagcatalog entryVTvg toolkitcatalog entryVCvina carbtoolVGvina gpucatalog entryVIvirchow2catalog entryVIvirsorter2catalog entryV2vista 2dcatalog entryvitessce toolcatalog entryWOwaddington otcatalog entryWAwarptoolWEwestpatoolWCwhat checktoolWSwizards staffcatalog entryWOwotcatalog entryWDwu dao wen sucatalog entryX3x 3dflexcatalog entryXDxdstoolY2yuel 2catalog entryZYzymctrlcatalog entry

Registry, dispatch, and runtime plumbing behind the substrate.

Trained and trainable models, embeddings, and protein language models.

ABabloopermodelALactive learning dmtlcatalog entryACagent curated atlas ingestcatalog entryAKakitamodelALallegromodelAMambertoolscatalog entryAMambertoolstoolAMaminobertcatalog entryAMamplifycatalog entryABankh basecatalog entryALankh largecatalog entryANantiformercatalog entryADautomated design of multi target ligands by generative deep learningcatalog entryBAbasenjimodelBRbert rbpcatalog entryBIbiogptcatalog entryBGbiokg gnncatalog entryBRbionemo rfdiffusion nimcatalog entryBBbionemo-boltz2-nimmodelBCbionemo-complexa-binder-designmodelBCbionemo-complexa-designmodelBCbionemo-complexa-evaluate-pdbsmodelBCbionemo-complexa-setupmodelBCbionemo-complexa-slurmmodelBCbionemo-complexa-sweepmodelBCbionemo-complexa-targetmodelBDbionemo-diffdock-nimmodelBDbionemo-drug-discovery-pipelinemodelBEbionemo-evo2-nimmodelBGbionemo-genmol-nimmodelBMbionemo-molmim-nimmodelBMbionemo-msa-search-nimmodelBMbionemo-msa-structure-prediction-pipelinemodelBObionemo-openfold2-nimmodelBObionemo-openfold3-nimmodelBPbionemo-protein-binder-designmodelBPbionemo-proteinmpnn-nimmodelBRbionemo-rfdiffusion-nimmodelBObotorchcatalog entryBPbpnetmodelCAcancerfoundationmodelCEcellfatemodelCEcellotypemodelCEcellposemodelCDcellpose-dinomodelCScellpose-sammodelCEcellsammodelcelltypist modelscatalog entryCEcellwhisperermodelCHchembertacatalog entryCHchemberta2catalog entryCHchemberta3catalog entryCHchrombpnetmodelCLcleandnamodelCOclinical outcome predictorcatalog entryCOcoachmodelCOcodontransformercatalog entryCOcofactormodelCPcpdiffusioncatalog entryCPcrispr predictioncatalog entryCAcryodrgn aimodelCRcryofiremodelDAdanqmodelDDdarwin deepmodeloptimcatalog entryDDdarwin dnabert2catalog entryDEdarwin enformercatalog entryDEdarwin eve modelcatalog entryDGdarwin geneformercatalog entryDNdarwin nicheformercatalog entryDNdarwin nucleotide transformercatalog entryDNdarwin nucleotide transformer v2catalog entryDRdarwin rfdiffusioncatalog entryDSdarwin scfoundationcatalog entryDSdarwin scgptcatalog entryDSdarwin sei modelcatalog entryDLdeep learning enabled discovery of kinase drug targets in pharoscatalog entryDEdeepaccnetmodelDEdeepaffinitymodelDEdeepblinkmodelDEdeepddgmodelDEdeepecmodelDEdeepfrimodelDEdeepgoplusmodelDEdeeppurposemodelDEdeepsitemodelDIdiffusionddgmodelDIdistilprotbertcatalog entryDLdl-linking-modelscatalog entryDNdnabertcatalog entrydnabert2catalog entryDRdrugformercatalog entryEGegnncatalog entryECembedding-clustertoolESembedding-similaritytoolEUembedding-umaptoolENenchantmodelenformercatalog entryenformer track viewercatalog entryEPepinformercatalog entryEMeve modelcatalog entryEVevo2modelFLfederated learning enginecatalog entryFLflashpca2catalog entryFTfm training data gencatalog entryFOformercatalog entryFAfrontier agent benchmarkcatalog entryGEgearsmodelGEgenecompassmodelgeneformermodelgeneformer-v2modelGPgenomic predictioncatalog entryGEgeoppimodelGMgpt molbertacatalog entryGRgraphmvpmodelGIgrn-inferencemodelGRgrnformercatalog entryHEheistmodelHIhiboumodelINinstansegmodelINinstraincatalog entryJBjura bio modelcatalog entryKRkronosmodelLElearnmsacatalog entryLDlnp-delivery-predictmodelLDloop diffusioncatalog entryMMmace mp0modelMEmetalnetmodelMSmicro-sammodelMOmodelangelomodelMOmoderngenamodelMOmolformercatalog entryMXmolformer xlcatalog entryMTmsa transformercatalog entryMPmusk-pathologymodelNEnequipmodelNEneuralplexermodelNEnextstraincatalog entryNCnf-core-bacmodelpipelineNDnfcore deepmodeloptimcatalog entryNInicheformercatalog entryNOnovaecatalog entryNTnucleotide transformercatalog entryNTnucleotide transformer v2catalog entryOMomiclipmodelOMomniposemodelPApathchatmodelPIpca-interactivevisualizationPPpca-plotvisualizationPPperturb-predictmodelPPperturbation prediction benchmarkcatalog entryPEpetribertcatalog entryPHphikonmodelPIpignet2modelPIpiscismodelPDplant dnabertcatalog entryPDplant dnagptcatalog entryPLplasmidgptcatalog entryPRplus rnncatalog entryPOpopvmodelPRprecious3gptcatalog entryPPprism-pathologymodelPRprobertacatalog entryPRprocapnetmodelPPprofile predictioncatalog entryPBprotbert bfdcatalog entryPUprotbert unirefcatalog entryPRprotgpt2catalog entryPEprottrans embeddingscatalog entryPUpubmedbertcatalog entryQUquickpcacatalog entryREregformermodelrepeatmodeler2catalog entryRCreprogramming-cocktail-optmodelrfdiffusionpipelineRFrfdiffusion2catalog entryRFrfdiffusion3catalog entryRIribodiffusioncatalog entrySAsalukimodelSCscarchesmodelSCscbertmodelSCscciphermodelSCscformercatalog entrySCscfoundationcatalog entrySCscgptmodelSCsckgbertmodelSCsclongmodelSCscmaemodelSCscmambamodelSCscmoformermodelSCscmulanmodelSCsctabmodelSMsei modelcatalog entryspliceai modelcatalog entrySPspotiflowmodelSRsragentcatalog entrySTstformercatalog entrySTstlearncatalog entrySSstlearn stcatalog entrySUsurfdockmodelTAtabulamodelTTtape transformercatalog entryTPtitan-pathologymodelTOtorchmdmodelTRtrackastramodelTItsne-interactivevisualizationTPtsne-plotvisualizationTXtxgnncatalog entryUKukbiobertmodelUKukbioformermodelUKukbiozoimodelUMumaptoolUVumap viewercatalog entryUIumap-interactivevisualizationUPumap-plotvisualizationUMuni mol molecular modelcatalog entryUNunidocktoolUDunimol dockingmodel

Folding, complexes, interfaces, and binding design.

3S3d-structure-viewervisualizationAUaf unmaskedcatalog entryAFaf2bindcatalog entryAFaf2ravecatalog entryAMalphafold multimercatalog entryalphafold2modelalphafold2pipelinealphafold2 multimercatalog entryALalphafold3modelALalphafold3pipelineALalphapulldowntoolANantifoldmodelBEbeyond esm2 graph enhanced protein sequence modeling with efficientcatalog entryBAbionemo alphafold2 nimcatalog entryBPbionemo proteinmpnn nimcatalog entryBOboltzcatalog entryB1boltz 1catalog entryB2boltz 2catalog entryBOboltz1catalog entryBOboltz2catalog entryBOboltzgencatalog entryCOcodonmpnncatalog entryCAcofolding affinity fmcatalog entrycolabfoldpipelinecomplexheatmapcatalog entryCMcontact map proteincatalog entryCRcrossbindcatalog entryDAdalitoolDAdarwin alphafold2catalog entryDAdarwin alphafold3catalog entryDBdarwin bionemo boltz2catalog entryDBdarwin bionemo openfold3catalog entryDBdarwin bionemo proteina complexacatalog entryDBdarwin bionemo proteinmpnncatalog entryDBdarwin boltzcatalog entryDBdarwin boltz1catalog entryDBdarwin boltz2catalog entryDBdarwin boltzgencatalog entryDCdarwin colabfoldcatalog entryDEdarwin esm cambriancatalog entryDEdarwin esm1vcatalog entryDEdarwin esm2catalog entryDEdarwin esm3catalog entryDEdarwin esmfoldcatalog entryDOdarwin omegafoldcatalog entryDOdarwin openfoldcatalog entryDRdarwin rhofoldcatalog entryDRdarwin rosettafoldcatalog entryDMdeepcell-mesmermodelDEdeepurfoldcatalog entryDIdiffbindcatalog entryDIdiffbindfrcatalog entryDMdmpfoldcatalog entryDMdmpnncatalog entryDYdynamicbindcatalog entryDYdynamicmpnnmodelEFefoldcatalog entryEIeigenfoldcatalog entryEQequibindmodelEAesm aacatalog entryECesm cambriancatalog entryEDesm dbpcatalog entryEGesm gearnetcatalog entryENesm nbrcatalog entryE4esm1 43mcatalog entryE6esm1 670m ur100catalog entryE6esm1 670m ur50 dcatalog entryE6esm1 670m ur50 scatalog entryE8esm1 85mcatalog entryESesm1bcatalog entryESesm1vcatalog entryesm2catalog entryesm2 150mcatalog entryesm2 15bcatalog entryesm2 35mcatalog entryesm2 3bcatalog entryesm2 650mcatalog entryesm2 8mcatalog entryesm2 embeddingscatalog entryESesm3catalog entryEOesm3 open smallcatalog entryESesmflowcatalog entryesmfoldmodelesmfoldpipelineEDesmif ddgcatalog entryESesmif1catalog entryETeternafoldcatalog entryEVevobind2catalog entryFAfabindcatalog entryFAfaststructurecatalog entryFOfolddocktoolFOfoldflowcatalog entryFOfoldflow2catalog entryFOfoldseekcatalog entryFMfoldseek-multimercatalog entryFNfoldseek-nativecatalog entryFSfoldseek-searchcatalog entryFOfoldxcatalog entryFVfvfoldcatalog entryGEgearbindcatalog entryGSgene-structure-plotvisualizationHEhelixfold3catalog entryHYhypermpnncatalog entryIDidpfoldcatalog entryIGigfoldcatalog entryIMimproved motif scaffolding with se 3 flow matchingcatalog entryICinfrastructure cost dashboardcatalog entryIFinverse-folding-designpipelineLPlabloop protein leadoptcatalog entryLIligandmpnncatalog entryL7llama 7b protein oriented instruction tunedcatalog entryLFlw-ft-protein-lmcatalog entryMLmachine learning a model for rna structure predictioncatalog entryMAmassivefoldcatalog entryMOmoefold2dcatalog entryMPmpnnsolcatalog entryMSmsa-structure-predictionpipelineMXmxfold2catalog entryNEnano esm2 embeddingcatalog entryNBnf-binder-designpipelineNPnfcore proteinannotatorcatalog entryNPnfcore proteinfamiliescatalog entryNPnfcore proteinfoldcatalog entryomegafoldcatalog entryONontoproteincatalog entryopenfoldcatalog entryOPopenfold3catalog entryPTpdb to mmcifcatalog entryPEpeptidebertcatalog entryPIpifoldmodelPPpromptable protein gencatalog entryPCprotein coverage mapcatalog entryPMprotein mambacatalog entryPBprotein-binder-designpipelinePCprotein-coverage-plotvisualizationPDprotein-designpipelinePCproteina complexacatalog entryPRproteinbertcatalog entryPRproteinchatcatalog entryPRproteindtcatalog entryPRproteingancatalog entryPRproteingeneratorcatalog entryP1proteinglm 1bcatalog entryPRproteininrcatalog entryPRproteinlmcatalog entryproteinmpnnpipelineproteinmpnn ddgcatalog entryPRproteinrediffcatalog entryPRproteinsettransformercatalog entryPRproteinsgmcatalog entryPRproteinstructuretransformercatalog entryRHrhofoldcatalog entryRSrna secondary structurecatalog entryRSrna structure fmcatalog entryRSrna structure viewercatalog entryRNrnadifffoldcatalog entryRSrosetta suitecatalog entryROrosettafoldcatalog entryRArosettafold aacatalog entryRArosettafold all atom rfaacatalog entryRArosettafold allatomcatalog entryROrosettafold2catalog entryRLrosettafold2 litecatalog entryROrosettafold2nacatalog entrySEseedfoldcatalog entrySIsimplefoldcatalog entrySOsolublempnnmodelSBstructural-biology-complexpipelineSIstructure informed protein language modelcatalog entrySVstructure viewercatalog entrySCstructure-confidencevisualizationTAtankbindmodelTEtext2proteincatalog entryTHthermompnnmodelTPthermostable protein designcatalog entryTRtransbindmodelTRtrrosettacatalog entryUFufoldcatalog entryUNunifoldmodelVEvesmcatalog entry

Format conversion, storage, and retrieval across the corpus.

AAadapter-aicsimageio-importmoduleAAadapter-anvilmoduleABadapter-bio-formats-importmoduleACadapter-citation-provenancemoduleAFadapter-fairdom-seekmoduleAFadapter-fasta-to-sequencemoduleAGadapter-ga4gh-tes-clientmoduleAGadapter-ga4gh-wes-clientmoduleAGadapter-gen3moduleAGadapter-gpu-container-executormoduleAGadapter-gpu-device-schedulermoduleAHadapter-huggingface-gated-modelsmoduleAIadapter-inline-image-to-dcrfimagemoduleAIadapter-irodsmoduleAIadapter-isa-toolsmoduleALadapter-labkeymoduleAMadapter-model-cache-managermoduleANadapter-nemo-agent-toolkitmoduleAOadapter-ome-zarr-exportmoduleAOadapter-ome-zarr-importmoduleAOadapter-omeromoduleAOadapter-open-shell-runnermoduleAOadapter-openbismoduleAPadapter-proto-languagemoduleAPadapter-proto-toolsmoduleAPadapter-python-tool-envmoduleARadapter-redcapmoduleARadapter-result-normalizermoduleATadapter-terramoduleATadapter-tool-schema-importermoduleATamr tablecatalog entryBIbam indexcatalog entryBSbam sortcatalog entryBTbam to cramcatalog entryBEbioconductor ecosystemcatalog entryBTbiocontainers-trscatalog entryBFbiologic formulation developmentcatalog entryBIbiopathnetcatalog entryBIbiophicatalog entryBDbioprocess digital twincatalog entryBDbioprocess downstream purificationcatalog entryBSbioprocess scaleupcatalog entryBUbioprocess upstream titercatalog entryBIbioreasoncatalog entryBPbioreason procatalog entryBIbiotoolscatalog entryBFbispecific format engcatalog entrycell2locationcatalog entryCEcellprofilertoolCGclinical genomics ivdcatalog entryCLcloud lab orchestrationcatalog entryclusterprofilercatalog entryCAcpic apicatalog entryCAcpic api v2catalog entryCTcram to bamcatalog entryCTcsv to h5adcatalog entrydandelioncatalog entryDBdarwin bionemo evo2catalog entryDBdarwin bionemo genmolcatalog entryDBdarwin bionemo molmimcatalog entryDCdarwin cell2locationcatalog entryDDdarwin datasynccatalog entryDGdarwin giotto toolcatalog entryDHdarwin hyenadnacatalog entryDMdarwin macs3 toolcatalog entryDOdarwin omicsgenetraitassociationcatalog entryDTdarwin thermorawfileparser toolcatalog entryDTdata tablecatalog entrydeeptools-bamcoveragetooldeeptools-computematrixtoolDSdl-synbio-codesigncatalog entryDRdrkgcatalog entryEReigenfield regulatory kgcatalog entryECenrichr clientcatalog entryEXexpansionhuntercatalog entryEEexpert eval data enginecatalog entryFDfda ddt qualificationcatalog entryFFfusion fscatalog entryGAgapitcatalog entryG2genie 2 biocatalog entryGSgenie scope biocatalog entryGEgeoabcatalog entryGIgiottocatalog entryGCgisaid clicatalog entryGCglycosylation comparabilitycatalog entryGPgprofilercatalog entryGRgraphbpcatalog entryGRgrapheccatalog entryHTh5ad to csvcatalog entryHEhetionetcatalog entryHYhyenadnacatalog entryINinteractiomicscatalog entryKGkgdrpcatalog entrymacs3catalog entryMRmendelian randomizationcatalog entryMImice imputationcatalog entryMIminigraphcatalog entryMCminigraph cactuscatalog entryMPminigraph pgcatalog entryMTmtx to h5adcatalog entryMLmutation landscapecatalog entryMSmutation signature panelcatalog entryPFparabricks fq2bamcatalog entryPDpdfiicatalog entryPEpepprclipcatalog entryPApharmvar apicatalog entryPRprimekgcatalog entryPRprothyenacatalog entryRErelioncatalog entrySTsam to bamcatalog entrySAsamplesizercatalog entrySAsamplesizrcatalog entrySAsapienscatalog entrySCschyenacatalog entrySSscribbleprompt samcatalog entrySIsigprofilercatalog entrySCsodb clientcatalog entrySYsynvisiocatalog entrythermorawfileparsercatalog entryTRtranceptioncatalog entryTNtransmission networkcatalog entryTWtwosamplemrcatalog entryWCwave clicatalog entryXSxsracatalog entry

Publication figures, tracks, and browsers.

ADamr dashboardcatalog entryBPbar-plotvisualizationBDbenchmarking dashboardcatalog entryBPbox-plotvisualizationBTbtracktoolCRcandidate-report-packvisualizationCBcbioportalvisualizationCBcell-browservisualizationCCcell-cycle-plotvisualizationCScell-selectorvisualizationCHchimeraxvisualizationCIcircos-interactivevisualizationCPcircos-plotvisualizationCRclinical report summarycatalog entryCPclonotype plotcatalog entryCMcluster-marker-heatmapvisualizationCScomparison-summaryvisualizationCPconfidence plotcatalog entryCNcopy-number-plotvisualizationCHcorrelation-heatmapvisualizationCPcoverage plotcatalog entryCHcoverage-histogramvisualizationCYcytoscapejsvisualizationDTdegs-tablevisualizationDPdensity-plotvisualizationDPdesign-program-graphvisualizationDCdocument-contract-evidencevisualizationDPdot-plotvisualizationDPdoublet-plotvisualizationDPduplicates-plotvisualizationEBenrichment bar chartcatalog entryEBenrichment barplotcatalog entryEDenrichment dotplotcatalog entryEBenrichment-barvisualizationEPepivizvisualizationFCflow-cytometry-viewervisualizationFPforest-plotvisualizationFSfragment-size-plotvisualizationFGfusion gene plotcatalog entryGBgc-bias-plotvisualizationGBgene bar plotcatalog entryGOgoslingvisualizationGPgsea-plotvisualizationHEheatmapvisualizationHIheatmap-interactivevisualizationhiglassvisualizationIDigv desktopcatalog entryigvjsvisualizationISinsert-size-plotvisualizationjbrowse2visualizationJPjunction-plotvisualizationKPkaryotype-plotvisualizationLPline-plotvisualizationLClive-cell-trackingpipelineLPlollipop-plotvisualizationMPma-plotvisualizationMQmag quality plotcatalog entryMAmanhattanvisualizationMPmanhattan plotcatalog entrymofa factor plotcatalog entryMOmulti omics circoscatalog entryMOmulti-omics-viewervisualizationNVnano volcano plotcatalog entryNAnanoplotcatalog entryNMnanopore modification trackcatalog entryNEnetwork-explorervisualizationNRnfcore reporthocatalog entryOToptimization-tracevisualizationODoutbreak dashboardcatalog entryPHpae heatmapcatalog entryPPpair-plotvisualizationPFpareto-frontiervisualizationPSpeak signal heatmapcatalog entryPPpeak-profilevisualizationPVpeak-viewervisualizationPPpedigree plotcatalog entryPPperturbation plotcatalog entryPCpie-chartvisualizationplotlycatalog entryPApower analysis plotcatalog entryQRqc-reportvisualizationQPqq plotcatalog entryQSquality-strip-plotvisualizationRBrbp browsercatalog entryRDread-distribution-plotvisualizationRAregional association plotcatalog entryRVreport viewercatalog entryRGreportlab genomicscatalog entrySDsample-distance-plotvisualizationSIsankey-interactivevisualizationSPsashimi-plotvisualizationSPscatter-plotvisualizationSMsmall mol ind trackcatalog entrySBstacked-barvisualizationSPstrip-plotvisualizationSPsurvival-plotvisualizationTBtad browsercatalog entryTStrack-stackedvisualizationTRtrackmatecatalog entryULucsc-linkoutvisualizationUPupset-plotvisualizationVIvenn-interactivevisualizationVPviolin-plotvisualizationVIvolcano-interactivevisualizationVPvolcano-plotvisualizationWLwashu-linkoutvisualization

nf-core style pipelines and workflow engines.

Quantification, differential expression, and isoform analysis.

BBbirna bertcatalog entryBRbmfm rnacatalog entryBRbridge rnacatalog entryCCcellranger-counttoolCCcfrna codexcatalog entryCMcount-matrixtoolCPcountdown-plotvisualizationDBdarwin bionemo rnaprocatalog entryDCdarwin circrnacatalog entryDDdarwin denovotranscriptcatalog entryDDdarwin deseq2catalog entryDEdarwin edger toolcatalog entryDKdarwin kallisto bustoolscatalog entryDLdarwin limma toolcatalog entryDLdarwin lsmquantcatalog entryDPdarwin pydeseq2 toolcatalog entryDRdarwin rna fmcatalog entryDRdarwin rnaseqcatalog entryDRdarwin rnavarcatalog entryDSdarwin smrnaseqcatalog entryDSdarwin spotrnacatalog entrydeseq2tooldeseq2 containercatalog entryedgertoolERernie rnacatalog entryEAexpression-atlasvisualizationFEfeaturecountstoolFQfish-quanttoolFCfluorescence-cell-countpipelineGLglimmacatalog entryIVisoform viewercatalog entryisoquantcatalog entryJQjunction-quantifytoolkallistocatalog entrykallisto bustoolscatalog entrylimmatoolMAmaxquantcatalog entryMCmcp countercatalog entryMTmirna target networkcatalog entryMLmldd3utrmrrnascatalog entryMDmrna-designmodelMRmrnabertcatalog entryNRnano rnaseqcatalog entryNCnf-core-ncrnannotatorpipelineNCnfcore circdnacatalog entryNCnfcore circrnacatalog entryNDnfcore denovotranscriptcatalog entryNDnfcore differentialabundancecatalog entryNDnfcore dualrnaseqcatalog entryNLnfcore lsmquantcatalog entryNQnfcore quantmscatalog entryNRnfcore rnadnavarcatalog entryNRnfcore rnafusioncatalog entryNRnfcore rnaseqcatalog entryNRnfcore rnasplicecatalog entryNRnfcore rnavarcatalog entryNSnfcore smrnaseqcatalog entryNSnfcore stableexpressioncatalog entryPCpeak-count-barvisualizationPFplantrna fmcatalog entryPQproteomics-quantificationpipelinePRprotrnacatalog entryPYpydeseq2catalog entryrna fmcatalog entryRFrna frameflowcatalog entryRLrna language models predict mutations that improve rna functioncatalog entryRMrna msmcatalog entryRWrna world simulatorcatalog entryRMrna-modification-plotvisualizationRSrna-speedpipelineRNrnacgcatalog entryRNrnadiffusioncatalog entryRNrnaerniecatalog entryRNrnafmcatalog entryRNrnaformercatalog entryRNrnaprocatalog entryRNrnaseqpipelineRDrnaseq-de-edgerpipelineRDrnaseq-de-limmapipelineRSrnaseq-salmonpipelineRSrnaseq-salmon-quantpipelineRSrsemcatalog entrysalmoncatalog entrysalmon-quanttoolSCsegmentation-counttoolSQsegmentation-quantifytoolSGsgrnagencatalog entrySCsmfish-countpipelineSPspotrnacatalog entryTRtranscriptformercatalog entryVIviennarnacatalog entry

Graph queries and causal tooling.

Programmatic entry points for chemistry.

Contract and protocol modules underpinning tool calls.