TFEA.ChIP

DOI: 10.18129/B9.bioc.TFEA.ChIP    

Analyze Transcription Factor Enrichment

Bioconductor version: Release (3.8)

Package to analize transcription factor enrichment in a gene set using data from ChIP-Seq experiments.

Author: Laura Puente SantamarĂ­a, Luis del Peso

Maintainer: Laura Puente SantamarĂ­a <lpsantamaria at iib.uam.es>

Citation (from within R, enter citation("TFEA.ChIP")):

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("TFEA.ChIP", version = "3.8")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("TFEA.ChIP")

 

HTML R Script Vignette Title
PDF   Reference Manual
Text   NEWS

Details

biocViews ChIPSeq, GeneRegulation, GeneSetEnrichment, RNASeq, Sequencing, Software, Transcription, Transcriptomics
Version 1.2.0
License Artistic-2.0
Depends R (>= 3.3), dplyr, TxDb.Hsapiens.UCSC.hg19.knownGene, org.Hs.eg.db
Imports GenomicRanges, IRanges, biomaRt, GenomicFeatures, grDevices, stats, utils, R.utils
LinkingTo
Suggests knitr, rmarkdown, S4Vectors, plotly, scales, tidyr, ggplot2, GSEABase, DESeq2, BiocGenerics
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package TFEA.ChIP_1.2.0.tar.gz
Windows Binary TFEA.ChIP_1.2.0.zip
Mac OS X 10.11 (El Capitan) TFEA.ChIP_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TFEA.ChIP
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TFEA.ChIP
Package Short Url http://bioconductor.org/packages/TFEA.ChIP/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: