MotIV

DOI: 10.18129/B9.bioc.MotIV    

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

Motif Identification and Validation

Bioconductor version: Release (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 (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("MotIV")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF   Reference Manual

Details

biocViews ChIPSeq, ChIPchip, GenomicSequence, Microarray, MotifAnnotation, Software
Version 1.46.0
In Bioconductor since BioC 2.6 (R-2.11) (10.5 years)
License GPL-2
Depends R (>= 2.10), graphics, BiocGenerics, GenomicRanges
Imports methods, stats, grid, S4Vectors, IRanges(>= 1.13.5), Biostrings, lattice, rGADEM, utils
LinkingTo
Suggests rtracklayer
SystemRequirements GNU Scientific Library >= 1.6 (http://www.gnu.org/software/gsl/)
Enhances
URL
Depends On Me
Imports Me TCGAWorkflow
Suggests Me
Links To Me
Build Report  

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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