MotIV

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.12 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: 3.12

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 (from within R, enter citation("MotIV")):

Installation

To install this package, start R (version "4.0") 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

Reference Manual PDF

Details

biocViews ChIPSeq, ChIPchip, GenomicSequence, Microarray, MotifAnnotation, Software
Version 1.46.0
In Bioconductor since BioC 2.6 (R-2.11) (14 years)
License GPL-2
Depends R (>= 2.10), graphics, BiocGenerics, GenomicRanges
Imports methods, stats, grid, S4Vectors, IRanges(>= 1.13.5), Biostrings, lattice, rGADEM, utils
System Requirements GNU Scientific Library >= 1.6 (http://www.gnu.org/software/gsl/)
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Package Archives

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

Source Package
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/MotIV
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MotIV
Package Short Url https://bioconductor.org/packages/MotIV/
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Old Source Packages for BioC 3.12 Source Archive