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Bioconductor - R3CPET (development version)

R3CPET

This is the development version of R3CPET; for the stable release version, see R3CPET.

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

Bioconductor version: Development (3.22)

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 gmail.com>

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

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("R3CPET")

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

Documentation

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

browseVignettes("R3CPET")
3CPET: Finding Co-factor Complexes maintaining Chia-PET interactions PDF R Script Reference Manual PDF NEWS Text Details biocViews Bayesian, GeneExpression, GenePrediction, GraphAndNetwork, HiC, Network, NetworkInference, Software Version 1.41.0 In Bioconductor since BioC 3.1 (R-3.2) (10 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 System Requirements URL Bug Reports https://github.com/sirusb/R3CPET/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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