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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 "NetActivity" in publications use:'
type: software
license: MIT
title: 'NetActivity: Compute gene set scores from a deep learning framework'
version: 1.7.0
doi: 10.1093/NAR/GKAE197
abstract: '#'' NetActivity enables to compute gene set scores from previously trained
  sparsely-connected autoencoders. The package contains a function to prepare the
  data (`prepareSummarizedExperiment`) and a function to compute the gene set scores
  (`computeGeneSetScores`). The package `NetActivityData` contains different pre-trained
  models to be directly applied to the data. Alternatively, the users might use the
  package to compute gene set scores using custom models.'
authors:
- family-names: Ruiz-Arenas
  given-names: Carlos
  email: carlos.ruiza@upf.edu
preferred-citation:
  type: article
  title: NetActivity enhances transcriptional signals by combining gene expression
    into robust gene set activity scores through interpretable autoencoders
  authors:
  - name: Ruiz-Arenas
  - name: Carlos
  - name: Marin-Goni
  - name: Irene
  - name: Wang
  - name: Leiwei
  - name: Ochoa
  - name: Idoia
  - name: Perez-Jurado
  - family-names: A
    given-names: Luis
  - name: Hernaez
  - name: Mikel
  journal: Nucleic acids research
  year: '2024'
  volume: '1'
  doi: 10.1093/NAR/GKAE197
repository: https://bioc.r-universe.dev
contact:
- family-names: Ruiz-Arenas
  given-names: Carlos
  email: carlos.ruiza@upf.edu