R3CPET

DOI: 10.18129/B9.bioc.R3CPET    

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

Bioconductor version: Release (3.6)

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>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("R3CPET")

Documentation

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

browseVignettes("R3CPET")

 

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

Details

biocViews	Bayesian, GeneExpression, GenePrediction, GraphAndNetwork, HiC, Network, NetworkInference, Software
Version	1.10.0
In Bioconductor since	BioC 3.1 (R-3.2) (3 years)
License	GPL (>=2)
Depends	R (>= 3.2), Rcpp (>= 0.10.4), methods
Imports	methods, parallel, clues, ggplot2, pheatmap, clValid, igraph, data.table, reshape2, Hmisc, RCurl, BiocGenerics, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, ggbio
LinkingTo	Rcpp
Suggests	BiocStyle, knitr, TxDb.Hsapiens.UCSC.hg19.knownGene, biovizBase, biomaRt, AnnotationDbi, org.Hs.eg.db, shiny, ChIPpeakAnno
SystemRequirements
Enhances
URL
BugReports	https://github.com/sirusb/R3CPET/issues
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Source Package	R3CPET_1.10.0.tar.gz
Windows Binary	R3CPET_1.10.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	R3CPET_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/R3CPET
Package Short Url	http://bioconductor.org/packages/R3CPET/
Package Downloads Report	Download Stats