Last data update: 2014.03.03
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motifStack
Package: motifStack
Type: Package
Version: 1.16.2
Date: 2015-10-9
Title: Plot stacked logos for single or multiple DNA, RNA and amino
acid sequence
Authors@R: c(person("Jianhong Ou", "Developer", role = c("aut", "cre"),
email = "jianhong.ou@umassmed.edu"),
person("Michael Brodsky", "User", role = "ctb",
email = "Michael.Brodsky@umassmed.edu"),
person("Scot Wolfe", "User", role = "ctb",
email = "Scot.Wolfe@umassmed.edu"),
person("Lihua Julie Zhu", "Developer", role = "aut",
email = "Julie.Zhu@umassmed.edu"))
Author: Jianhong Ou, Michael Brodsky, Scot Wolfe and Lihua Julie Zhu
Maintainer: Jianhong Ou <jianhong.ou@umassmed.edu>
Imports: XML, scales
Depends: R (>= 2.15.1), methods, grImport, grid, MotIV, ade4,
Biostrings
Suggests: RUnit, BiocGenerics, MotifDb, RColorBrewer, BiocStyle, knitr
biocViews: SequenceMatching, Visualization, Sequencing, Microarray,
Alignment, ChIPchip, ChIPSeq, MotifAnnotation, DataImport
Description: 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.
License: GPL (>= 2)
Lazyload: yes
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-05-16 03:39:38 UTC; biocbuild
● BiocViews: Alignment, ChIPSeq, ChIPchip, DataImport, Microarray, MotifAnnotation, SequenceMatching, Sequencing, Visualization
●
14 images,
30 functions,
0 datasets
●
Reverse Depends: 1
Install log
* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'motifStack' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'motifStack'
finding HTML links ... done
DNAmotifAlignment html
colorset html
getRankedUniqueMotifs html
highlightCol html
mergeMotifs html
motifCircos html
motifCloud html
motifPiles html
motifSig-class html
motifSig-methods html
motifSignature html
motifStack-package html
motifStack html
ouNode-class html
pcm-class html
pcm-methods html
pfm-class html
pfm-methods html
pfm2pwm html
Rd warning: /tmp/RtmpPryWgZ/R.INSTALL7480792ec6ed/motifStack/man/pfm2pwm.Rd:21: missing file link 'PWM'
plotMotifLogo html
plotMotifLogoA html
plotMotifLogoStack html
plotMotifLogoStackWithTree html
plotMotifOverMotif html
plotMotifStackWithPhylog html
plotMotifStackWithRadialPhylog html
plotXaxis html
plotYaxis html
readPCM html
reorderUPGMAtree html
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (motifStack)
Making 'packages.html' ... done
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