R3CPET
This is thereleased version of R3CPET; for the devel version, seeR3CPET.
3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process
Bioconductor version: Release (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")BiocManager::install("R3CPET")For older versions of R, please refer to the appropriateBioconductor 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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Bayesian,GeneExpression,GenePrediction,GraphAndNetwork,HiC,Network,NetworkInference,Software |
| Version | 1.42.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (10.5 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
| Suggests | BiocStyle,knitr,TxDb.Hsapiens.UCSC.hg19.knownGene,biovizBase,biomaRt,AnnotationDbi,org.Hs.eg.db,shiny,ChIPpeakAnno |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | R3CPET_1.42.0.tar.gz |
| Windows Binary (x86_64) | R3CPET_1.42.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/R3CPET |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/R3CPET |
| Bioc Package Browser | https://code.bioconductor.org/browse/R3CPET/ |
| Package Short Url | https://bioconductor.org/packages/R3CPET/ |
| Package Downloads Report | Download Stats |