triform

DOI: 10.18129/B9.bioc.triform    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see triform.

Triform finds enriched regions (peaks) in transcription factor ChIP-sequencing data

Bioconductor version: 3.10

The Triform algorithm uses model-free statistics to identify peak-like distributions of TF ChIP sequencing reads, taking advantage of an improved peak definition in combination with known profile characteristics.

Author: Karl Kornacker Developer [aut], Tony Handstad Developer [aut, cre]

Maintainer: Thomas Carroll <tc.infomatics at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("triform")

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("triform")

 

PDF	R Script	Triform users guide
PDF		Reference Manual

Details

biocViews	ChIPSeq, Sequencing, Software
Version	1.28.0
In Bioconductor since	BioC 2.11 (R-2.15) (7.5 years)
License	GPL-2
Depends	R (>= 2.11.0), IRanges, yaml
Imports	BiocGenerics, IRanges(>= 2.5.27), yaml
LinkingTo
Suggests	RUnit
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	triform_1.28.0.tar.gz
Windows Binary	triform_1.28.0.zip
Mac OS X 10.11 (El Capitan)	triform_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/triform
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/triform
Package Short Url	https://bioconductor.org/packages/triform/
Package Downloads Report	Download Stats