Package: OHCA 1.9.0

Jacques Serizay

OHCA: Orchestrating Hi-C analysis with Bioconductor

The primary aim of this book is to introduce the R user to Hi-C analysis. This book starts with key concepts important for the analysis of chromatin conformation capture and then presents Bioconductor tools that can be leveraged to process, analyze, explore and visualize Hi-C data.

Authors:Jacques Serizay [aut, cre]

OHCA_1.9.0.tar.gz
OHCA_1.9.0.zip(r-4.7)OHCA_1.9.0.zip(r-4.6)OHCA_1.9.0.zip(r-4.5)
OHCA_1.9.0.tgz(r-4.6-any)OHCA_1.9.0.tgz(r-4.5-any)
OHCA_1.9.0.tar.gz(r-4.7-any)OHCA_1.9.0.tar.gz(r-4.6-any)
OHCA_1.9.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
OHCA/json (API)

# Install 'OHCA' in R:
install.packages('OHCA', repos = c('https://tempbioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/js2264/ohca/issues

On CRAN:

Conda:

hicdna3dstructurefunctionalgenomics

4.34 score 11 stars 2 scripts 0 exports 239 dependencies

Last updated from:6b215aa360. Checks:1 NOTE, 7 WARNING, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksNOTE369
linux-devel-x86_64WARNING465
source / vignettesOK1897
linux-release-x86_64WARNING3300
macos-release-arm64WARNING379
macos-oldrel-arm64WARNING248
windows-develWARNING371
windows-releaseWARNING350
windows-oldrelWARNING356
wasm-releaseOK323

Exports:

Dependencies:abindaggregationAnnotationDbiAnnotationFilterAnnotationHubaskpassbackportsbase64encbasiliskbasilisk.utilsbeeswarmBHBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocIObiocmakeBiocManagerBiocParallelBiocStyleBiocVersionbiomaRtBiostringsbiovizBasebitbit64bitopsblobbookdownBSgenomeBSgenome.Hsapiens.UCSC.hg38bslibcachemCairocalibratecheckmatecigarilloclicliprclustercodetoolscolorspacecowplotcpp11crayoncrosstalkcsawcurldata.tableDBIdbplyrDelayedArraydeldirdichromatdiffHicdigestdir.expiryDNAZooDatadoParalleldplyrdynamicTreeCutedgeRensembldbevaluateExperimentHubfarverfastclusterfastmapfilelockfontawesomeforeachforeignformatRFormulafourDNDatafsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicInteractionsGenomicRangesggbeeswarmggbioggplot2ggrastrglueGOTHiCgraphgridExtragtablegtoolsGvizhereHiCcompareHiCExperimentHiContactsHiContactsDataHiCoolhighrHmischmshtmlTablehtmltoolshtmlwidgetshttrhttr2hwriterigraphimputeInteractionSetinterpIRangesisobanditeratorsjpegjquerylibjsonliteKEGGRESTKernSmoothknitrlabelinglambda.rlaterlatticelatticeExtralazyevallifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemetapodmgcvmimemultiHiCcomparenlmennetopensslOrganismDbiotelpatchworkpbapplypheatmappillarpkgconfigplotlyplyinteractionsplyrplyrangespngpreprocessCoreprettyunitsprogresspromisesProtGenericspurrrpwalignqqmanR6raggrappdirsRBGLRColorBrewerRcppRcppArmadilloRcppEigenRcppParallelRcppTOMLRCurlreadrreshape2restfulrreticulateRfastrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrmarkdownrmdformatsrpartrprojrootRsamtoolsRSpectraRSQLiterstudioapirtracklayerS4ArraysS4VectorsS7sassscalesSeqinfosessioninfoShortReadsnowSparseArraystatmodstrawrstringistringrSummarizedExperimentsurvivalsyssystemfontsterratextshapingtibbletidyrtidyselecttinytexTopDomtzdbUCSC.utilsutf8VariantAnnotationvctrsviporviridisLitevroomWGCNAwithrxfunXMLxml2XVectoryamlzigg

Link to book

Rendered fromstub.Rmdusingknitr::rmarkdownon May 28 2026.

Last update: 2024-01-22
Started: 2023-11-03