joda

Package: joda
Type: Package
Title: JODA algorithm for quantifying gene deregulation using knowledge
Version: 1.20.0
Date: 2011-04-03
Author: Ewa Szczurek
Description: Package 'joda' implements three steps of an algorithm
called JODA. The algorithm computes gene deregulation scores.
For each gene, its deregulation score reflects how strongly an
effect of a certain regulator's perturbation on this gene
differs between two different cell populations. The algorithm
utilizes regulator knockdown expression data as well as
knowledge about signaling pathways in which the regulators are
involved (formalized in a simple matrix model).
Reference: Szczurek E, Markowetz F, Gat-Viks I, Biecek P, Tiuryn J,
Vingron M: Deregulation upon DNA damage revealed by joint
analysis of context-specific perturbation data. Submitted.
Maintainer: Ewa Szczurek <szczurek@molgen.mpg.de>
Depends: R (>= 2.0), bgmm, RBGL
URL: http://www.bioconductor.org
License: GPL (>= 2)
biocViews: Microarray, Pathways, GraphAndNetwork, StatisticalMethod,
NetworkInference
NeedsCompilation: no
Packaged: 2016-05-04 03:57:45 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'joda' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'joda'
    finding HTML links ... done
    damage                                  html  
    deregulation.p.values                   html  
    deregulation.scores                     html  
    differential.probs                      html  
    regulation.scores                       html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (joda)
Making 'packages.html' ... done