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# CITATION file created with {cffr} R package
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cff-version: 1.2.0
message: 'To cite package "pram" in publications use:'
type: software
license: GPL-3.0-or-later
title: 'pram: Pooling RNA-seq datasets for assembling transcript models'
version: 1.21.1
doi: 10.1101/gr.252445.119
abstract: 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.
authors:
- family-names: Liu
  given-names: Peng
  email: pliu55.wisc+bioconductor@gmail.com
- family-names: Dewey
  given-names: Colin N.
- family-names: Keleş
  given-names: Sündüz
preferred-citation:
  type: article
  title: 'PRAM: a novel pooling approach for discovering intergenic transcripts from
    large-scale RNA sequencing experiments'
  authors:
  - family-names: Liu
    given-names: Peng
    email: pliu55.wisc+bioconductor@gmail.com
  - family-names: Soukup
    given-names: Alexandra A.
  - family-names: Bresnick
    given-names: Emery H.
  - family-names: Dewey
    given-names: Colin N.
  - family-names: Keleş
    given-names: Sündüz
  year: '2020'
  volume: '30'
  journal: Genome Research
  doi: 10.1101/gr.252445.119
  start: 1655-1666
repository: https://bioc.r-universe.dev
repository-code: https://github.com/pliu55/pram
url: https://github.com/pliu55/pram
contact:
- family-names: Liu
  given-names: Peng
  email: pliu55.wisc+bioconductor@gmail.com