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>

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

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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	AnnotationData, AnnotationHub, FunctionalAnnotation, GenomicSequence
Version	0.99.4
License	MIT + file LICENSE
Depends
Imports
System Requirements
URL	https://github.com/mdozmorov/CTCF
Bug Reports	https://github.com/mdozmorov/CTCF/issues

Suggests	BiocStyle, knitr, rmarkdown, sessioninfo, AnnotationHub
Linking To
Enhances
Depends On Me
Imports Me
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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