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

This is the development version of triform; for the stable release version, see triform.

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

Bioconductor version: Development (3.0)

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>

To install this package, start R and enter:

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

Installation

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 1.7.0
In Bioconductor since BioC 2.11 (R-2.15)
License GPL-2
Depends R (>= 2.11.0), IRanges, yaml
Imports IRanges, yaml, BiocGenerics
Suggests RUnit
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source triform_1.7.0.tar.gz
Windows Binary triform_1.7.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) triform_1.7.0.tgz
Mac OS X 10.9 (Mavericks) triform_1.7.0.tgz
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