R3CPET

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

Bioconductor version: 3.23 · Package version: 1.44.0

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.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("R3CPET")

Details

Maintainer	Mohamed Nadhir Djekidel <djek.nad@gmail.com>
Author	Djekidel MN, Yang Chen et al.
License	GPL (>=2)
URL	https://github.com/sirusb/R3CPET
Bug Reports	https://github.com/sirusb/R3CPET/issues
Downloads rank	551
Source branch	RELEASE_3_23
biocViews	Bayesian, GeneExpression, GenePrediction, GraphAndNetwork, HiC, Network, NetworkInference, Software

Documentation

3CPET: Finding Co-factor Complexes maintaining Chia-PET interactions

Download

Follow the installation instructions to use this package in your R session.

Source package	R3CPET_1.44.0.tar.gz
Windows binary (x86_64)	R3CPET_1.44.0.zip

Dependencies

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

LinkingTo: Rcpp

Suggests: BiocStyle, knitr, TxDb.Hsapiens.UCSC.hg19.knownGene, biovizBase, biomaRt, AnnotationDbi, org.Hs.eg.db, shiny, ChIPpeakAnno