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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 "TREG" in publications use:'
type: software
license: Artistic-2.0
title: 'TREG: Tools for finding Total RNA Expression Genes in single nucleus RNA-seq
  data'
version: 1.9.0
doi: 10.18129/B9.bioc.TREG
abstract: RNA abundance and cell size parameters could improve RNA-seq deconvolution
  algorithms to more accurately estimate cell type proportions given the different
  cell type transcription activity levels. A Total RNA Expression Gene (TREG) can
  facilitate estimating total RNA content using single molecule fluorescent in situ
  hybridization (smFISH). We developed a data-driven approach using a measure of expression
  invariance to find candidate TREGs in postmortem human brain single nucleus RNA-seq.
  This R package implements the method for identifying candidate TREGs from snRNA-seq
  data.
authors:
- family-names: Huuki-Myers
  given-names: Louise
  email: lahuuki@gmail.com
  orcid: https://orcid.org/0000-0001-5148-3602
preferred-citation:
  type: manual
  title: 'TREG: a R/Bioconductor package to identify Total RNA Expression Genes'
  authors:
  - family-names: Huuki-Myers
    given-names: Louise A.
  - family-names: Collado-Torres
    given-names: Leonardo
  year: '2024'
  url: http://www.bioconductor.org/packages/TREG
  notes: https://github.com/LieberInstitute/TREG/TREG - R package version 1.9.0
  doi: 10.18129/B9.bioc.TREG
repository: https://bioc.r-universe.dev
repository-code: https://github.com/LieberInstitute/TREG
url: https://support.bioconductor.org/t/TREG
date-released: '2023-06-16'
contact:
- family-names: Huuki-Myers
  given-names: Louise
  email: lahuuki@gmail.com
  orcid: https://orcid.org/0000-0001-5148-3602
references:
- type: article
  title: Data Driven Identification of Total RNA Expression Genes "TREGs" for estimation
    of RNA abundance in heterogeneous cell types
  authors:
  - family-names: Huuki-Myers
    given-names: Louise A.
  - family-names: Montgomery
    given-names: Kelsey D.
  - family-names: Kwon
    given-names: Sang Ho.
  - family-names: Page
    given-names: Stephanie C.
  - family-names: Hicks
    given-names: Stephanie C.
  - family-names: Maynard
    given-names: Kristen R.
  - family-names: Collado-Torres
    given-names: Leonardo
  year: '2022'
  journal: bioRxiv
  doi: 10.1101/2022.04.28.489923
  url: https://doi.org/10.1101/2022.04.28.489923
identifiers:
- type: url
  value: http://research.libd.org/TREG/