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# CITATION.cff 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 "path2path" in publications use:'
type: software
license: MIT
title: 'path2path: Directional Pathway-by-Pathway Interaction Maps from Genome-Scale
  Perturb-Seq'
version: 0.99.4
doi: 10.32614/CRAN.package.path2path
abstract: 'Builds a directional pathway-by-pathway interaction map from genome-scale
  Perturb-seq differential-expression statistics by two stacked runs of preranked
  gene set enrichment analysis: once per perturbation over genes, then once per readout
  pathway over perturbations. Entry (j,k) of the resulting matrix measures whether
  perturbations targeting pathway j''s members produce a coordinated transcriptional
  response in pathway k. The package includes target exclusion, effective-size filters,
  overlap masking, Stage 2 p-values with false-discovery-rate control, and a whole-pipeline
  permutation calibration with generalized-Pareto tail estimation.'
authors:
- family-names: Li
  given-names: Jun
  email: jun.li@nd.edu
  orcid: https://orcid.org/0000-0003-4353-5761
repository: https://biocstaging.r-universe.dev
repository-code: https://github.com/jli-stat/path2path
commit: 7d979ae4573a0ee936aaf9dfb40fa672f388435e
url: https://github.com/jli-stat/path2path
date-released: '2026-10-10'
contact:
- family-names: Li
  given-names: Jun
  email: jun.li@nd.edu
  orcid: https://orcid.org/0000-0003-4353-5761