CTCF

DOI: 10.18129/B9.bioc.CTCF    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see CTCF.

Genomic coordinates of CTCF binding sites, with orientation

Bioconductor version: 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>

Installation

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

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

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/
Package Downloads Report	Download Stats