CTCF

DOI: 10.18129/B9.bioc.CTCF    

This is the development version of CTCF; to use it, please install the devel version of Bioconductor.

Genomic coordinates of CTCF binding sites, with orientation

Bioconductor version: Development (3.14)

Genomic coordinates of predicted CTCF binding sites with motif MA0139.1 (Jaspar), in BED format. With strand orientation (directionality of binding). Human (hg19, hg38) and mouse (mm9, mm10) genomes. The binding sites were detected using the FIMO tool of the MEME suite using default settings. Extra columns include motif name (MA0139.1), score, p-value, q-value, and the motif sequence.

Author: Mikhail Dozmorov [aut, cre] , Eric Davis [aut], Wancen Mu [aut], Stuart Lee [aut], Tim Triche [aut], Douglas Phanstiel [aut], Michael Love [aut]

Maintainer: Mikhail Dozmorov <mikhail.dozmorov at gmail.com>

Citation (from within R, enter citation("CTCF")):

Installation

To install this package, start R (version "4.1") and enter:

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

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

BiocManager::install("CTCF")

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("CTCF")

 

HTML R Script Introduction to CTCF
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews AnnotationData, AnnotationHub, FunctionalAnnotation, GenomicSequence
Version 0.99.4
License MIT + file LICENSE
Depends
Imports
LinkingTo
Suggests BiocStyle, knitr, rmarkdown, sessioninfo, AnnotationHub
SystemRequirements
Enhances
URL https://github.com/mdozmorov/CTCF
BugReports https://github.com/mdozmorov/CTCF/issues
Depends On Me
Imports Me
Suggests Me
Links To Me

Package Archives

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

Source Package CTCF_0.99.4.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Package Short Url https://bioconductor.org/packages/CTCF/
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