Roleswitch

Package: Roleswitch
Type: Package
Title: Infer miRNA-mRNA interactions using paired expression data from
a single sample
Version: 1.10.0
Date: 2013-12-20
Author: Yue Li
Maintainer: Yue Li <yueli@cs.toronto.edu>
Description: Infer Probabilities of MiRNA-mRNA Interaction Signature
(ProMISe) using paired expression data from a single sample.
Roleswitch operates in two phases by inferring the probability
of mRNA (miRNA) being the targets ("targets") of miRNA (mRNA),
taking into account the expression of all of the mRNAs (miRNAs)
due to their potential competition for the same miRNA (mRNA).
Due to dynamic miRNA repression in the cell, Roleswitch assumes
that the total transcribed mRNA levels are higher than the
observed (equilibrium) mRNA levels and iteratively updates the
total transcription of each mRNA targets based on the above
inference. NB: in the paper, we used ProMISe as both the model
name and inferred score name.
Depends: R (>= 2.10), pracma, reshape, plotrix, microRNA, biomaRt,
Biostrings, Biobase, DBI
Suggests: ggplot2
License: GPL-2
URL: http://www.cs.utoronto.ca/~yueli/roleswitch.html
Lazyload: yes
biocViews: miRNA
NeedsCompilation: no
Packaged: 2016-05-06 03:59:52 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'Roleswitch' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'Roleswitch'
    finding HTML links ... done
    Roleswitch-package                      html  
    diagnosticPlot                          html  
    getSeedMatrix                           html  
    roleswitch                              html  
Rd warning: /tmp/RtmpppSJZn/R.INSTALL6a17786b44b4/Roleswitch/man/roleswitch.Rd:42: missing file link 'eSet'
Rd warning: /tmp/RtmpppSJZn/R.INSTALL6a17786b44b4/Roleswitch/man/roleswitch.Rd:42: missing file link 'ExpressionSet'
Rd warning: /tmp/RtmpppSJZn/R.INSTALL6a17786b44b4/Roleswitch/man/roleswitch.Rd:45: missing file link 'eSet'
    tcga_gbm_testdata                       html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Roleswitch)
Making 'packages.html' ... done