DESCRIPTION

Package: TREG
Title: Tools for finding Total RNA Expression Genes in single nucleus RNA-seq
    data
Version: 1.9.0
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