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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 package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see motifStack.
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Bioconductor version: 3.3
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")
| R Script | motifStack Vignette | |
| HTML | R Script | motifStack Vignette |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Alignment, ChIPSeq, ChIPchip, DataImport, Microarray, MotifAnnotation, SequenceMatching, Sequencing, Software, Visualization |
| Version | 1.16.2 |
| 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_1.16.2.tar.gz |
| Windows Binary | motifStack_1.16.2.zip |
| Mac OS X 10.9 (Mavericks) | motifStack_1.16.2.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/motifStack/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/motifStack/ |
| Package Downloads Report | Download Stats |
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