Package: GenomicInteractionNodes 1.17.0

Jianhong Ou

GenomicInteractionNodes: A R/Bioconductor package to detect the interaction nodes from HiC/HiChIP/HiCAR data

The GenomicInteractionNodes package can import interactions from bedpe file and define the interaction nodes, the genomic interaction sites with multiple interaction loops. The interaction nodes is a binding platform regulates one or multiple genes. The detected interaction nodes will be annotated for downstream validation.

Authors:Jianhong Ou [aut, cre], Yarui Diao [fnd]

GenomicInteractionNodes_1.17.0.tar.gz
GenomicInteractionNodes_1.17.0.zip(r-4.7)GenomicInteractionNodes_1.17.0.zip(r-4.6)GenomicInteractionNodes_1.17.0.zip(r-4.5)
GenomicInteractionNodes_1.17.0.tgz(r-4.6-any)GenomicInteractionNodes_1.17.0.tgz(r-4.5-any)
GenomicInteractionNodes_1.17.0.tar.gz(r-4.7-any)GenomicInteractionNodes_1.17.0.tar.gz(r-4.6-any)
GenomicInteractionNodes_1.17.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
GenomicInteractionNodes/json (API)
NEWS

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

Bug tracker:https://github.com/jianhong/genomicinteractionnodes/issues

On BioConductor:GenomicInteractionNodes-1.17.0(bioc 3.24)GenomicInteractionNodes-1.16.0(bioc 3.23)

hicsequencingsoftware

4.65 score 1 scripts 294 downloads 4 exports 70 dependencies

Last updated from:26c86197c8. Checks:1 NOTE, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE195
linux-devel-x86_64OK692
source / vignettesOK383
linux-release-x86_64OK513
macos-release-arm64OK333
macos-oldrel-arm64OK381
windows-develOK480
windows-releaseOK391
windows-oldrelOK452
wasm-releaseOK214

Exports:annotateNodescreateRandomNodesdetectNodesenrichmentAnalysis

Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobcachemcigarilloclicodetoolscpp11crayoncurlDBIDelayedArrayfastmapformatRfutile.loggerfutile.optionsgenericsGenomicAlignmentsGenomicFeaturesGenomicRangesglueGO.dbgraphhttrIRangesjsonliteKEGGRESTlambda.rlatticelifecycleMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpkgconfigpngR6RBGLRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorsSeqinfosnowSparseArraySummarizedExperimentsysvctrsXMLXVectoryaml

GenomicInteractionNodes Guide

Jianhong Ou, Yu Xiang, Xiaolin Wei, and Yarui Diao

Rendered fromGenomicInteractionNodes_vignettes.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2022-04-11
Started: 2022-04-11