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# CITATION file created with {cffr} R package
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cff-version: 1.2.0
message: 'To cite package "seqArchRplus" in publications use:'
type: software
license: GPL-3.0-only
title: 'seqArchRplus: Downstream analyses of promoter sequence architectures and HTML
  report generation'
version: 1.5.0
abstract: 'seqArchRplus facilitates downstream analyses of promoter sequence architectures/clusters
  identified by seqArchR (or any other tool/method). With additional available information
  such as the TPM values and interquantile widths (IQWs) of the CAGE tag clusters,
  seqArchRplus can order the input promoter clusters by their shape (IQWs), and write
  the cluster information as browser/IGV track files. Provided visualizations are
  of two kind: per sample/stage and per cluster visualizations. Those of the first
  kind include: plot panels for each sample showing per cluster shape, TPM and other
  score distributions, sequence logos, and peak annotations. The second include per
  cluster chromosome-wise and strand distributions, motif occurrence heatmaps and
  GO term enrichments. Additionally, seqArchRplus can also generate HTML reports for
  easy viewing and comparison of promoter architectures between samples/stages.'
authors:
- family-names: Nikumbh
  given-names: Sarvesh
  email: sarvesh.nikumbh@gmail.com
  orcid: https://orcid.org/0000-0003-3163-4447
repository: https://bioc.r-universe.dev
repository-code: https://github.com/snikumbh/seqArchRplus
url: https://github.com/snikumbh/seqArchRplus
contact:
- family-names: Nikumbh
  given-names: Sarvesh
  email: sarvesh.nikumbh@gmail.com
  orcid: https://orcid.org/0000-0003-3163-4447