Bioconductor - TFEA.ChIP

Bioconductor - TFEA.ChIP
Bioconductor 3.22
Software Packages
TFEA.ChIP
TFEA.ChIP
This is the
released
version of TFEA.ChIP; for the devel version, see
TFEA.ChIP
TFEA.ChIP, a Tool Kit for Transcription Factor Enrichment
DOI:
10.18129/B9.bioc.TFEA.ChIP
Bioconductor version:
Release (3.22)
Package to analyze transcription factor enrichment in a gene set using data from ChIP-Seq experiments.
Author:
Yosra Berrouayel [aut, cre]
ORCID: 0000-0002-0768-5933
, Laura Puente-Santamaria [aut], Luis del Peso [aut]
ORCID: 0000-0003-4014-5688
Maintainer:
Yosra Berrouayel
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")

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
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
ChIPSeq
ChipOnChip
GeneExpression
GeneRegulation
GeneSetEnrichment
ImmunoOncology
RNASeq
Sequencing
Software
Transcription
Transcriptomics
Version
1.30.0
In Bioconductor since
BioC 3.7 (R-3.5) (8 years)
License
Artistic-2.0
Depends
R (>= 4.2.0)
Imports
GenomicRanges
IRanges
biomaRt
GenomicFeatures
GenomicRanges
, grDevices,
dplyr
, stats, utils,
R.utils
, methods,
org.Hs.eg.db
org.Mm.eg.db
rlang
ExperimentHub
System Requirements
URL
Bug Reports
See More
Suggests
knitr
rmarkdown
BiocStyle
S4Vectors
Seqinfo
meta
plotly
scales
tidyr
purrr
tibble
ggplot2
DESeq2
edgeR
limma
babelgene
BiocGenerics
ggrepel
rcompanion
TxDb.Hsapiens.UCSC.hg19.knownGene
TxDb.Hsapiens.UCSC.hg38.knownGene
AnnotationDbi
RColorBrewer
RUnit
testthat
(>= 3.0.0)
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
ChIPDBData
Links To Me
Build Report
Build Report
Package Archives
Follow
Installation
instructions to use this package in your R session.
Source Package
TFEA.ChIP_1.30.0.tar.gz
Windows Binary (x86_64)
TFEA.ChIP_1.30.0.zip
macOS Binary (x86_64)
TFEA.ChIP_1.30.0.tgz
macOS Binary (arm64)
TFEA.ChIP_1.30.0.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
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