pram
This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see pram.
Pooling RNA-seq datasets for assembling transcript models
Bioconductor version: 3.20
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.
Author: Peng Liu [aut, cre], Colin N. Dewey [aut], Sündüz Keleş [aut]
Maintainer: Peng Liu <pliu55.wisc+bioconductor at gmail.com>
citation("pram")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("pram")
For older versions of R, please refer to the appropriate Bioconductor release.
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browseVignettes("pram")
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