Last data update: 2014.03.03

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