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
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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")
| R Script | 3CPET: Finding Co-factor Complexes maintaining Chia-PET interactions | |
| 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 |
Documentation »
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