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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 "SPOTlight" in publications use:'
type: software
license: GPL-3.0-only
title: 'SPOTlight: `SPOTlight`: Spatial Transcriptomics Deconvolution'
version: 1.16.0
doi: 10.32614/CRAN.package.SPOTlight
abstract: '`SPOTlight` provides a method to deconvolute spatial transcriptomics spots
  using a seeded NMF approach along with visualization tools to assess the results.
  Spatially resolved gene expression profiles are key to understand tissue organization
  and function. However, novel spatial transcriptomics (ST) profiling techniques lack
  single-cell resolution and require a combination with single-cell RNA sequencing
  (scRNA-seq) information to deconvolute the spatially indexed datasets. Leveraging
  the strengths of both data types, we developed SPOTlight, a computational tool that
  enables the integration of ST with scRNA-seq data to infer the location of cell
  types and states within a complex tissue. SPOTlight is centered around a seeded
  non-negative matrix factorization (NMF) regression, initialized using cell-type
  marker genes and non-negative least squares (NNLS) to subsequently deconvolute ST
  capture locations (spots).'
authors:
- family-names: Elosua-Bayes
  given-names: Marc
  email: elosua.marc@gmail.com
- family-names: DeBruine
  given-names: Zachary
  email: zacharydebruine@gmail.com
- family-names: Crowell
  given-names: Helena L.
  email: helena@crowell.eu
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/MarcElosua/SPOTlight
commit: 0a54588cec957dd8bf9275af12272b23cbc7fc8b
url: https://github.com/MarcElosua/SPOTlight
date-released: '2026-04-28'
contact:
- family-names: Elosua-Bayes
  given-names: Marc
  email: elosua.marc@gmail.com