# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "fishpond" in publications use:'
type: software
license: GPL-2.0-only
title: 'fishpond: Fishpond: downstream methods and tools for expression data'
version: 2.18.0
doi: 10.1093/nar/gkz622
identifiers:
- type: doi
  value: 10.32614/CRAN.package.fishpond
- type: url
  value: https://thelovelab.github.io/fishpond
- type: url
  value: https://thelovelab.com/mikelove/fishpond
abstract: Fishpond contains methods for differential transcript and gene expression
  analysis of RNA-seq data using inferential replicates for uncertainty of abundance
  quantification, as generated by Gibbs sampling or bootstrap sampling. Also the package
  contains a number of utilities for working with Salmon and Alevin quantification
  files.
authors:
- family-names: Zhu
  given-names: Anqi
- family-names: Love
  given-names: Michael
  email: michaelisaiahlove@gmail.com
- family-names: Srivastava
  given-names: Avi
- family-names: Patro
  given-names: Rob
- family-names: Ibrahim
  given-names: Joseph
preferred-citation:
  type: article
  title: Nonparametric expression analysis using inferential replicate counts
  authors:
  - family-names: Zhu
    given-names: Anqi
  - family-names: Srivastava
    given-names: Avi
  - family-names: Ibrahim
    given-names: Joseph G.
  - family-names: Patro
    given-names: Rob
  - family-names: Love
    given-names: Michael I.
  year: '2019'
  journal: Nucleic Acids Research
  doi: 10.1093/nar/gkz622
  url: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6765120
  volume: '47'
  issue: '18'
  start: e105
repository: https://bioc-release.r-universe.dev
commit: d572667f13a05be8ff45ea246a8f40c481a40a6f
url: https://support.bioconductor.org/tag/fishpond
date-released: '2026-04-28'
contact:
- family-names: Love
  given-names: Michael
  email: michaelisaiahlove@gmail.com