Package: TREG
Title: Tools for finding Total RNA Expression Genes in single nucleus
        RNA-seq data
Version: 1.17.0
Date: 2023-06-16
Authors@R: 
    c(person(given = "Louise",
           family = "Huuki-Myers",
           role = c("aut", "cre"),
           email = "lahuuki@gmail.com",
           comment = c(ORCID = "0000-0001-5148-3602")),
    person("Leonardo", "Collado-Torres", role = c("ctb"), 
    email = "lcolladotor@gmail.com", comment = c(ORCID = "0000-0003-2140-308X"))
    )
Description: 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.
License: Artistic-2.0
URL: https://github.com/LieberInstitute/TREG,
        http://research.libd.org/TREG/
BugReports: https://support.bioconductor.org/t/TREG
biocViews: Software, SingleCell, RNASeq, GeneExpression,
        Transcriptomics, Transcription, Sequencing
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Depends: R (>= 4.2), SummarizedExperiment
Suggests: BiocFileCache, BiocStyle, dplyr, ggplot2, knitr, pheatmap,
        sessioninfo, RefManageR, rmarkdown, testthat (>= 3.0.0),
        tibble, tidyr, SingleCellExperiment
Config/testthat/edition: 3
Imports: Matrix, purrr, rafalib
VignetteBuilder: knitr
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:57:58 UTC
RemoteUrl: https://github.com/bioc/TREG
RemoteRef: HEAD
RemoteSha: 930d109d6887de3e181523ee143983d70b0e70cf
NeedsCompilation: no
Packaged: 2026-07-12 09:11:21 UTC; root
Author: Louise Huuki-Myers [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-5148-3602>),
  Leonardo Collado-Torres [ctb] (ORCID:
    <https://orcid.org/0000-0003-2140-308X>)
Maintainer: Louise Huuki-Myers <lahuuki@gmail.com>