Package: HiCaptuRe 1.2.0

Laureano Tomas-Daza

HiCaptuRe: HiCaptuRe: Manipulating and integrating Capture Hi-C data

Capture Hi-C is a set of techniques that enable the detection of genomic interactions involving regions of interest, known as baits. By focusing on selected loci, these approaches reduce sequencing costs while maintaining high resolution at the level of restriction fragments. HiCaptuRe provides tools to import, annotate, manipulate, and export Capture Hi-C data. The package accounts for the specific structure of bait–otherEnd interactions, facilitates integration with other omics datasets, and enables comparison across samples and conditions.

Authors:Laureano Tomas-Daza [aut, cre]

HiCaptuRe_1.2.0.tar.gz
HiCaptuRe_1.2.0.zip(r-4.7)HiCaptuRe_1.2.0.zip(r-4.6)HiCaptuRe_1.2.0.zip(r-4.5)
HiCaptuRe_1.2.0.tgz(r-4.6-any)HiCaptuRe_1.2.0.tgz(r-4.5-any)
HiCaptuRe_1.2.0.tar.gz(r-4.7-any)HiCaptuRe_1.2.0.tar.gz(r-4.6-any)
HiCaptuRe_1.2.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html
card.svg |card.png
HiCaptuRe/json (API)
NEWS

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

Bug tracker:https://github.com/lauretomas/hicapture/issues

On BioConductor:HiCaptuRe-1.3.0(bioc 3.24)HiCaptuRe-1.2.0(bioc 3.23)

epigeneticshicsequencingdataimportsoftware

5.80 score 3 stars 21 scripts 188 downloads 13 exports 198 dependencies

Last updated from:8d22eb4164 (on RELEASE_3_23). Checks:1 NOTE, 9 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksNOTE327
linux-devel-x86_64OK623
source / vignettesOK489
linux-release-x86_64OK591
macos-release-arm64OK439
macos-oldrel-arm64OK422
windows-develOK871
windows-releaseOK918
windows-oldrelOK791
wasm-releaseOK255

Exports:annotate_interactionsdigest_genomedistance_summaryexport_interactionsgetByBaitsgetByRegionsgetParametersinteractionsByBaitsinteractionsByRegionsintersect_interactionsload_interactionspeakmatrix2listplot_distance_summary

Dependencies:abindadmiscAnnotationDbiAnnotationFilteraplotaskpassbackportsbase64encBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbiovizBasebitbit64bitopsblobbootbroomBSgenomebslibcachemcarcarDatacaToolscheckmatecigarillocliclustercodetoolscolorspacecorrplotcowplotcpp11crayoncurldata.tableDBIdbplyrDelayedArraydeldirDerivdichromatdigestdoBydplyrensembldbevaluatefarverfastmapfilelockfontawesomeforcatsforecastforeignformatRFormulafracdifffsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicInteractionsGenomicRangesggfunggplot2ggplotifyggpubrggrepelggsciggsignifggVennDiagramgluegplotsgridExtragridGraphicsgtablegtoolsGvizhighrHmischmshtmlTablehtmltoolshtmlwidgetshttrhttr2igraphInteractionSetinterpIRangesisobandjpegjquerylibjsonliteKEGGRESTKernSmoothknitrlabelinglambda.rlatticelatticeExtralazyevallifecyclelme4lmtestmagrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmemoisemgcvmicrobenchmarkmimeminqamodelrnlmenloptrnnetnumDerivopensslpatchworkpbkrtestpillarpkgconfigplyrpngpolynomprettyunitsprogressProtGenericspurrrquantregR6rappdirsrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRCurlRdpackreformulasrestfulrRhtslibrjsonrlangrmarkdownrpartRsamtoolsRSQLiterstatixrstudioapirtracklayerS4ArraysS4VectorsS7sassscalesSeqinfosnowSparseArraySparseMstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttimeDatetinytexUCSC.utilsUpSetRurcautf8VariantAnnotationvctrsvennviridisLitewithrxfunXMLxml2XVectoryamlyulab.utilszoo

HiCaptuRe Functions

Rendered fromvignette_functions.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2025-08-11
Started: 2023-12-14

HiCaptuRe Introduction

Rendered fromvignetteIntroduction.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2025-08-11
Started: 2023-12-14