DESCRIPTION

Package: recountNNLS
Title: Transcript abundance linear modeling from compressed coverage information
Version: 0.99.7
Maintainer: Jack Fu <jmfu@jhsph.edu>
Author: Jack Fu <jmfu@jhsph.edu>
Description: This pacakge provides an interface to estimate transcript abundances of any samples quantified by the aligner rail. This method is a non negative least squares estimation that calculates the number of reads that originated from each transcript of the coding portion of the GencodeV25 transcriptome. The model does not require raw aligned bam files, but is content with compressed coverage statistics primarily stored in bigwig formats.
Depends: R (>= 3.4),
      recountNNLSdata,
      GenomicRanges,
      SummarizedExperiment
Imports: recount,
      nnls,
      rtracklayer,
      stringr,
      parallel
Suggests: knitr
Enhances: 
VignetteBuilder: knitr
License: Artistic-2.0
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
biocViews: RNASeq, StatisticalMethod, Preprocessing, Sequencing, Coverage