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3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process

Bioconductor version: Release (3.19)

The package provides a method to infer the set of proteins that are more probably to work together to maintain chormatin interaction given a ChIA-PET experiment results.

Author: Djekidel MN, Yang Chen et al.

Maintainer: Mohamed Nadhir Djekidel <djek.nad at>

Citation (from within R, enter citation("R3CPET")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

3CPET: Finding Co-factor Complexes maintaining Chia-PET interactions PDF R Script
Reference Manual PDF


biocViews Bayesian, GeneExpression, GenePrediction, GraphAndNetwork, HiC, Network, NetworkInference, Software
Version 1.36.0
In Bioconductor since BioC 3.1 (R-3.2) (9.5 years)
License GPL (>=2)
Depends R (>= 3.2), Rcpp (>= 0.10.4), methods
Imports methods, parallel, ggplot2, pheatmap, clValid, igraph, data.table, reshape2, Hmisc, RCurl, BiocGenerics, S4Vectors, IRanges(>= 2.13.12), GenomeInfoDb, GenomicRanges(>= 1.31.8), ggbio
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Suggests BiocStyle, knitr, TxDb.Hsapiens.UCSC.hg19.knownGene, biovizBase, biomaRt, AnnotationDbi,, shiny, ChIPpeakAnno
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Source Package R3CPET_1.36.0.tar.gz
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