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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
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Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Bioconductor version: Release (3.5)
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
| HTML | R Script | motifStack Vignette |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Alignment, ChIPSeq, ChIPchip, DataImport, Microarray, MotifAnnotation, SequenceMatching, Sequencing, Software, Visualization |
| Version | 1.20.1 |
| In Bioconductor since | BioC 2.11 (R-2.15) (5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.15.1), methods, grImport, grid, MotIV, ade4, Biostrings |
| Imports | XML, scales, htmlwidgets |
| LinkingTo | |
| Suggests | RUnit, BiocGenerics, MotifDb, RColorBrewer, BiocStyle, knitr |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | dagLogo |
| Imports Me | LowMACA, motifbreakR |
| Suggests Me | ATACseqQC, ChIPpeakAnno |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | motifStack_1.20.1.tar.gz |
| Windows Binary | motifStack_1.20.1.zip |
| Mac OS X 10.11 (El Capitan) | motifStack_1.20.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/motifStack |
| Package Short Url | http://bioconductor.org/packages/motifStack/ |
| Package Downloads Report | Download Stats |
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