bioc-issue-bot
commented
2 years ago Hi @lahuuki
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: TREG
Title: Tools for finding Total RNA Expression Genes in single nucleus RNA-seq
data
Version: 0.99.0
Date: 2022-03-21
Authors@R:
c(person(given = "Louise",
family = "Huuki",
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: 7.1.2
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
PeteHaitch
vjcitn
lcolladotor
lshep
lahuuki
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