To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

R3CPET

DOI: 10.18129/B9.bioc.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 (3.6)

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>

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

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 1.9.0
In Bioconductor since BioC 3.1 (R-3.2) (2.5 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_1.9.0.tar.gz
Windows Binary R3CPET_1.9.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) R3CPET_1.9.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/R3CPET
Package Short Url http://bioconductor.org/packages/R3CPET/
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