MotIV
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 MotIV.
Motif Identification and Validation
Bioconductor version: 3.9
This package makes use of STAMP for comparing a set of motifs to a given database (e.g. JASPAR). It can also be used to visualize motifs, motif distributions, modules and filter motifs.
Author: Eloi Mercier, Raphael Gottardo
Maintainer: Eloi Mercier <emercier at bcgsc.ca>, Raphael Gottardo <rgottard at fhcrc.org>
citation("MotIV")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MotIV")
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("MotIV")| The MotIV users guide | R Script | |
| Reference Manual |
Details
| biocViews | ChIPSeq, ChIPchip, GenomicSequence, Microarray, MotifAnnotation, Software |
| Version | 1.40.0 |
| In Bioconductor since | BioC 2.6 (R-2.11) (14 years) |
| License | GPL-2 |
| Depends | R (>= 2.10), BiocGenerics(>= 0.1.0) |
| Imports | graphics, grid, methods, S4Vectors, IRanges(>= 1.13.5), Biostrings(>= 1.24.0), lattice, rGADEM, utils |
| System Requirements | GNU Scientific Library >= 1.6 (http://www.gnu.org/software/gsl/) |
| URL |
See More
| Suggests | rtracklayer |
| Linking To | |
| Enhances | |
| Depends On Me | motifStack |
| Imports Me | TCGAWorkflow |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MotIV_1.40.0.tar.gz |
| Windows Binary | MotIV_1.40.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | MotIV_1.40.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MotIV |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MotIV |
| Bioc Package Browser | https://code.bioconductor.org/browse/MotIV/ |
| Package Short Url | https://bioconductor.org/packages/MotIV/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |