DoubleExpSeq

Package: DoubleExpSeq
Type: Package
Title: Differential Exon Usage Test for RNA-Seq Data via Empirical
Bayes Shrinkage of the Dispersion Parameter
Version: 1.1
Date: 2015-09-01
Author: Sean Ruddy
Maintainer: Sean Ruddy <s.ruddy@yahoo.com>
Description: Differential exon usage test for RNA-Seq data via an empirical Bayes shrinkage method for the dispersion parameter the utilizes inclusion-exclusion data to analyze the propensity to skip an exon across groups. The input data consists of two matrices where each row represents an exon and the columns represent the biological samples. The first matrix is the count of the number of reads expressing the exon for each sample. The second matrix is the count of the number of reads that either express the exon or explicitly skip the exon across the samples, a.k.a. the total count matrix. Dividing the two matrices yields proportions representing the propensity to express the exon versus skipping the exon for each sample.
License: GPL-3
Imports: numDeriv, datasets, grDevices, graphics, stats, utils
NeedsCompilation: no
Packaged: 2015-09-03 23:11:01 UTC; exon
Repository: CRAN
Date/Publication: 2015-09-04 09:25:45

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'DoubleExpSeq' ...
** package 'DoubleExpSeq' successfully unpacked and MD5 sums checked
** R
** data
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'DoubleExpSeq'
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    DB.MAPlot                               html  
    DBGLM1                                  html  
    DoubleExpSeq-package                    html  
    EstimateDEBDisp                         html  
    EstimateWEBDisp                         html  
    counts                                  html  
    exon                                    html  
    groups                                  html  
    offsets                                 html  
    optimPlot                               html  
** building package indices
** testing if installed package can be loaded
* DONE (DoubleExpSeq)
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