pram: Pooling RNA-seq datasets for assembling transcript models

Publicly available RNA-seq data is routinely used for retrospective analysis to elucidate new biology. Novel transcript discovery enabled by large collections of RNA-seq datasets has emerged as one of such analysis. To increase the power of transcript discovery from large collections of RNA-seq datasets, we developed a new R package named Pooling RNA-seq and Assembling Models (PRAM), which builds transcript models in intergenic regions from pooled RNA-seq datasets. This package includes functions for defining intergenic regions, extracting and pooling related RNA-seq alignments, predicting, selected, and evaluating transcript models.

Package details

AuthorPeng Liu [aut, cre], Colin N. Dewey [aut], Sündüz Keleş [aut]
Bioconductor views RNASeq Sequencing Software Technology
MaintainerPeng Liu <[email protected]>
LicenseGPL (>= 3)
Version1.2.0
URL https://github.com/pliu55/pram
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("pram")

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pram documentation built on Oct. 31, 2019, 8:31 a.m.