triform
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see triform.
Triform finds enriched regions (peaks) in transcription factor ChIP-sequencing data
Bioconductor version: 3.9
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>
citation("triform")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("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")| Triform users guide | R Script | |
| Reference Manual |
Details
| biocViews | ChIPSeq, Sequencing, Software |
| Version | 1.26.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) (11.5 years) |
| License | GPL-2 |
| Depends | R (>= 2.11.0), IRanges, yaml |
| Imports | BiocGenerics, IRanges(>= 2.5.27), yaml |
| System Requirements | |
| URL |
See More
| Suggests | RUnit |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | triform_1.26.0.tar.gz |
| Windows Binary | triform_1.26.0.zip |
| Mac OS X 10.11 (El Capitan) | triform_1.26.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/triform |
| Source Repository (Developer Access) | git clone [email protected]:packages/triform |
| Bioc Package Browser | https://code.bioconductor.org/browse/triform/ |
| Package Short Url | https://bioconductor.org/packages/triform/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |