# ------------------------------------------------
# CITATION.cff file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# ------------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "rsemflow" in publications use:'
type: software
license: MIT
title: 'rsemflow: Metadata-Driven Downstream Analysis for RSEM Gene-Level Results'
version: 0.1.1
identifiers:
- type: doi
  value: 10.32614/CRAN.package.rsemflow
abstract: A command-line and R interface for reproducible downstream analysis of RSEM
  gene-level expression estimates. 'rsemflow' imports '*.genes.results' files together
  with ordinary sample metadata, computes expression-level summaries, normalization,
  principal component analysis, sample correlation, 'DESeq2' differential expression,
  preranked gene set enrichment analysis, 'GSVA' or 'ssGSEA' pathway scores, and Ensembl
  gene annotation. Every result is written as a tab-separated table; the package does
  not draw figures.
authors:
- family-names: Kumakura
  given-names: Daiki
  email: 55353329+DaikiKumakura@users.noreply.github.com
preferred-citation:
  type: manual
  title: 'rsemflow: Metadata-Driven Downstream Analysis for RSEM Gene-Level Results'
  authors:
  - family-names: Kumakura
    given-names: Daiki
    email: 55353329+DaikiKumakura@users.noreply.github.com
  year: '2026'
  notes: R package version 0.1.1
  url: https://github.com/DaikiKumakura/rsemflow
repository: https://daikikumakura.r-universe.dev
repository-code: https://github.com/DaikiKumakura/rsemflow
commit: 66f38bb6c804293d672d63fd4d94f3b03fdf6112
url: https://daikikumakura.github.io/rsemflow/
date-released: '2026-10-18'
contact:
- family-names: Kumakura
  given-names: Daiki
  email: 55353329+DaikiKumakura@users.noreply.github.com
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