To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("motifStack")

In most cases, you don't need to download the package archive at all.

motifStack

 

   

This is the development version of motifStack; for the stable release version, see motifStack.

Plot stacked logos for single or multiple DNA, RNA and amino acid sequence

Bioconductor version: Development (3.4)

The motifStack package is designed for graphic representation of multiple motifs with different similarity scores. It works with both DNA/RNA sequence motif and amino acid sequence motif. In addition, it provides the flexibility for users to customize the graphic parameters such as the font type and symbol colors.

Author: Jianhong Ou, Michael Brodsky, Scot Wolfe and Lihua Julie Zhu

Maintainer: Jianhong Ou <jianhong.ou at umassmed.edu>

Citation (from within R, enter citation("motifStack")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("motifStack")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("motifStack")

 

PDF R Script motifStack Vignette
HTML R Script motifStack Vignette
PDF   Reference Manual

Details

biocViews Alignment, ChIPSeq, ChIPchip, DataImport, Microarray, MotifAnnotation, SequenceMatching, Sequencing, Software, Visualization
Version 1.17.2
In Bioconductor since BioC 2.11 (R-2.15) (4 years)
License GPL (>= 2)
Depends R (>= 2.15.1), methods, grImport, grid, MotIV, ade4, Biostrings
Imports XML, scales
LinkingTo
Suggests RUnit, BiocGenerics, MotifDb, RColorBrewer, BiocStyle, knitr
SystemRequirements
Enhances
URL
Depends On Me dagLogo
Imports Me LowMACA, motifbreakR
Suggests Me ChIPpeakAnno
Build Report  

Package Archives

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

Package Source motifStack_1.17.2.tar.gz
Windows Binary motifStack_1.17.2.zip
Mac OS X 10.9 (Mavericks) motifStack_1.17.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/motifStack
Package Short Url http://bioconductor.org/packages/motifStack/
Package Downloads Report Download Stats

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