To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("triform")

In most cases, you don't need to download the package archive at all.

triform

 

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

Bioconductor version: Release (3.1)

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: Tony Handstad Developer <tony.handstad at gmail.com>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("triform")

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 1.10.0
In Bioconductor since BioC 2.11 (R-2.15) (3 years)
License GPL-2
Depends R (>= 2.11.0), IRanges, yaml
Imports IRanges, yaml, BiocGenerics
LinkingTo
Suggests RUnit
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source triform_1.10.0.tar.gz
Windows Binary triform_1.10.0.zip
Mac OS X 10.6 (Snow Leopard) triform_1.10.0.tgz
Mac OS X 10.9 (Mavericks) triform_1.10.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/triform/tree/release-3.1
Package Short Url http://bioconductor.org/packages/triform/
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