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 (3.20)
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 "4.4") 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 | ||
NEWS | Text |
Details
biocViews | ChIPSeq, GeneRegulation, GeneSetEnrichment, ImmunoOncology, RNASeq, Sequencing, Software, Transcription, Transcriptomics |
Version | 1.25.0 |
In Bioconductor since | BioC 3.7 (R-3.5) (6.5 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.
Source Package | TFEA.ChIP_1.25.0.tar.gz |
Windows Binary | TFEA.ChIP_1.25.0.zip |
macOS Binary (x86_64) | TFEA.ChIP_1.25.0.tgz |
macOS Binary (arm64) | TFEA.ChIP_1.25.0.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 |
Bioc Package Browser | https://code.bioconductor.org/browse/TFEA.ChIP/ |
Package Short Url | https://bioconductor.org/packages/TFEA.ChIP/ |
Package Downloads Report | Download Stats |