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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 "GSEAlens" in publications use:'
type: software
license: MIT
title: 'GSEAlens: Gene Set Enrichment Analysis Interactive Explorer'
version: 0.99.35
identifiers:
- type: doi
  value: 10.32614/CRAN.package.GSEAlens
abstract: GSEAlens provides an interactive exploration layer on top of standard Bioconductor
  RNA-seq workflows. It consumes fitted model objects from limma (MArrayLM) or DESeq2
  (DESeqDataSet) as input and accepts expression matrices and sample metadata as SummarizedExperiment
  objects, ensuring interoperability with core Bioconductor data containers. For core
  computation, GSEAlens wraps clusterProfiler::GSEA() as its statistical engine (thereby
  inheriting the fgsea fast GSEA methodology) and draws on MSigDB gene set collections
  via the msigdbr package from CRAN; multi-contrast parallel computation is handled
  by future (future::multisession). Visualization output relies on Bioconductor graphics
  packages including enrichplot, ComplexHeatmap, and circlize, producing figures suitable
  for publication pipelines. The package also includes a built-in Shiny application
  for interactive exploration of enrichment results after DEG analysis, with the ability
  to export self-contained reproducible R scripts.
authors:
- family-names: Xu
  given-names: Shenhui
  email: sealgod@qq.com
  orcid: https://orcid.org/0000-0002-2616-5132
preferred-citation:
  type: manual
  title: 'GSEAlens: Gene Set Enrichment Analysis Interactive Explorer'
  authors:
  - family-names: Xu
    given-names: Shenhui
    email: sealgod@qq.com
    orcid: https://orcid.org/0000-0002-2616-5132
  year: '2026'
  notes: R package version 0.99.35
  url: https://github.com/DDL095/GSEAlens
repository: https://bioc.r-universe.dev
repository-code: https://github.com/DDL095/GSEAlens
commit: d1807abe23fdacd7d9ebaf212e545abf0b471fd3
url: https://github.com/DDL095/GSEAlens
date-released: '2026-08-19'
contact:
- family-names: Xu
  given-names: Shenhui
  email: sealgod@qq.com
  orcid: https://orcid.org/0000-0002-2616-5132