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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "RIVER" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'RIVER: R package for RIVER (RNA-Informed Variant Effect on Regulation)'
version: 1.29.0
abstract: An implementation of a probabilistic modeling framework that jointly analyzes
  personal genome and transcriptome data to estimate the probability that a variant
  has regulatory impact in that individual. It is based on a generative model that
  assumes that genomic annotations, such as the location of a variant with respect
  to regulatory elements, determine the prior probability that variant is a functional
  regulatory variant, which is an unobserved variable. The functional regulatory variant
  status then influences whether nearby genes are likely to display outlier levels
  of gene expression in that person. See the RIVER website for more information, documentation
  and examples.
authors:
- family-names: Kim
  given-names: Yungil
  email: ipw012@gmail.com
- family-names: Battle
  given-names: Alexis
  email: ajbattle@cs.jhu.edu
preferred-citation:
  type: article
  title: The impact of rare variation on gene expression across tissues
  authors:
  - family-names: Li
    given-names: Xin
  - family-names: Kim
    given-names: Yungil
    email: ipw012@gmail.com
  - family-names: Tsang
    given-names: Emily K.
  - family-names: Davis
    given-names: Joe R.
  - family-names: Damani
    given-names: Farhan N.
  - family-names: Chiang
    given-names: Colby
  - family-names: Zappala
    given-names: Zachary
  - family-names: Strober
    given-names: Benjamin J.
  - family-names: Scott
    given-names: Alexandra J.
  - family-names: Ganna
    given-names: Andrea
  - family-names: Merker
    given-names: Jason
  - family-names: Consortium
    given-names: GTEx
  - family-names: Hall
    given-names: Ira M.
  - family-names: Battle
    given-names: Alexis
    email: ajbattle@cs.jhu.edu
  year: '2016'
  url: http://biorxiv.org/content/early/2016/09/09/074443
  journal: bioRxiv
repository: https://bioc.r-universe.dev
repository-code: https://github.com/ipw012/RIVER
url: https://github.com/ipw012/RIVER
contact:
- family-names: Kim
  given-names: Yungil
  email: ipw012@gmail.com