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]|
|Bioconductor views||RNASeq Sequencing Software Technology|
|Maintainer||Peng Liu <[email protected]>|
|License||GPL (>= 3)|
|Package repository||View on Bioconductor|
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