triform (original) (raw)
This package is for version 2.12 of Bioconductor; for the stable, up-to-date release version, seetriform.
Triform finds enriched regions (peaks) in transcription factor ChIP-sequencing data
Bioconductor version: 2.12
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 Håndstad Developer [aut, cre]
Maintainer: Tony Håndstad Developer <tony.handstad at gmail.com>
Citation (from within R, enter citation("triform")):
Installation
To install this package, start R and enter:
try http:// if https:// URLs are not supported
source("https://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")
Details
| biocViews | ChIPseq, Sequencing, Software |
|---|---|
| Version | 1.2.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) (3.5 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_1.2.0.tar.gz |
|---|---|
| Windows Binary | triform_1.2.0.zip |
| Mac OS X 10.6 (Snow Leopard) | triform_1.2.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/triform/tree/release-2.12 |
| Package Short Url | http://bioconductor.org/packages/triform/ |
| Package Downloads Report | Download Stats |