Package: GenomicInteractionNodes 1.9.0

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]

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GenomicInteractionNodes.pdf |GenomicInteractionNodes.html✨
GenomicInteractionNodes/json (API)
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Bug tracker:https://github.com/jianhong/genomicinteractionnodes/issues

On BioConductor:GenomicInteractionNodes-1.9.0(bioc 3.20)GenomicInteractionNodes-1.8.0(bioc 3.19)

bioconductor-package

4 exports 0.49 score 71 dependencies

Last updated 2 months agofrom:282b0420a4

Exports:annotateNodescreateRandomNodesdetectNodesenrichmentAnalysis

Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobcachemclicodetoolscpp11crayoncurlDBIDelayedArrayfastmapformatRfutile.loggerfutile.optionsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesglueGO.dbgraphhttrIRangesjsonliteKEGGRESTlambda.rlatticelifecycleMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpkgconfigplogrpngR6RBGLRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorssnowSparseArraySummarizedExperimentsysUCSC.utilsvctrsXMLXVectoryamlzlibbioc