To install this package, start R and enter:

## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("R3CPET")

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

R3CPET

 

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

Bioconductor version: Release (3.1)

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: M. N. Djekidel, 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 is not available
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, Network, NetworkInference, Software
Version 1.0.0
In Bioconductor since BioC 3.1 (R-3.2) (< 6 months)
License GPL (>=2)
Depends R (>= 3.2), Rcpp (>= 0.10.4), methods
Imports parallel, clues, ggplot2, pheatmap, IRanges, clValid, igraph, data.table, GenomicRanges, S4Vectors, DAVIDQuery, ggbio, reshape2, Hmisc
LinkingTo Rcpp
Suggests BiocStyle, knitr, TxDb.Hsapiens.UCSC.hg19.knownGene, biovizBase, biomaRt, AnnotationDbi, org.Hs.eg.db, shiny, ChIPpeakAnno
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source R3CPET_1.0.0.tar.gz
Windows Binary R3CPET_1.0.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) R3CPET_1.0.0.tgz
Mac OS X 10.9 (Mavericks) R3CPET_1.0.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/R3CPET/tree/release-3.1
Package Short Url http://bioconductor.org/packages/R3CPET/
Package Downloads Report Download Stats

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