cleanUpdTSeq

Package: cleanUpdTSeq
Type: Package
Title: This package classifies putative polyadenylation sites as true
or false/internally oligodT primed
Version: 1.10.2
Date: 2015-10-02
Author: Sarah Sheppard, Jianhong Ou, Nathan Lawson, Lihua Julie Zhu
Maintainer: Sarah Sheppard <Sarah.Sheppard@umassmed.edu>; Jianhong Ou
<Jianhong.Ou@umassmed.edu>; Lihua Julie Zhu
<Julie.Zhu@umassmed.edu>
Depends: R (>= 2.15), BiocGenerics (>= 0.1.0), methods, BSgenome,
BSgenome.Drerio.UCSC.danRer7, GenomicRanges, seqinr, e1071
Suggests: BiocStyle, knitr, RUnit
Description: This package uses the Naive Bayes classifier (from e1071)
to assign probability values to putative polyadenylation sites
(pA sites) based on training data from zebrafish. This will
allow the user to separate true, biologically relevant pA sites
from false, oligodT primed pA sites.
License: GPL-2
biocViews: Sequencing, SequenceMatching, Genetics, GeneRegulation
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2016-05-16 03:58:39 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'cleanUpdTSeq' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'cleanUpdTSeq'
    finding HTML links ... done
    BED2GRangesSeq                          html  
    PASclassifier-class                     html  
    buildClassifier                         html  
    buildFeatureVector                      html  
    classifier                              html  
    cleanUpdTSeq-package                    html  
    data.NaiveBayes                         html  
    featureVector-class                     html  
    getDownstreamSequence                   html  
    getUpstreamSequence                     html  
    modelInfo-class                         html  
    naiveBayes                              html  
    predictTestSet                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (cleanUpdTSeq)
Making 'packages.html' ... done