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Bioconductor - TFEA.ChIP (development version)

TFEA.ChIP

This is the development version of TFEA.ChIP; for the stable release version, see TFEA.ChIP.

Analyze Transcription Factor Enrichment

Bioconductor version: Development (3.22)

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

Author: Laura Puente Santamaría, Luis del Peso

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

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

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("TFEA.ChIP")

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")
TFEA.ChIP: a tool kit for transcription factor enrichment HTML R Script Reference Manual PDF NEWS Text Details biocViews ChIPSeq, GeneRegulation, GeneSetEnrichment, ImmunoOncology, RNASeq, Sequencing, Software, Transcription, Transcriptomics Version 1.29.1 In Bioconductor since BioC 3.7 (R-3.5) (7 years) License Artistic-2.0 Depends R (>= 3.5) Imports GenomicRanges, IRanges, biomaRt, GenomicFeatures, grDevices, dplyr, stats, utils, R.utils, methods, org.Hs.eg.db System Requirements URL See More Suggests knitr, rmarkdown, S4Vectors, plotly, scales, tidyr, ggplot2, DESeq2, BiocGenerics, ggrepel, rcompanion, TxDb.Hsapiens.UCSC.hg19.knownGene, RUnit Linking To Enhances Depends On Me Imports Me Suggests Me Links To Me Build Report Build Report Package Archives

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

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