bioc-issue-bot
commented
1 month ago Hi @jackgisby
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: ReducedExperiment
Type: Package
Title: Containers and tools for dimensionally-reduced -omics data
Version: 0.99.0
Authors@R: c(
person("Jack", "Gisby", , "jackgisby@gmail.com", role = c("aut", "cre"),
comment = c(ORCID = "0000-0003-0511-8123")),
person("Michael", "Barnes", , "m.r.barnes@qmul.ac.uk", role = c("aut"),
comment = c(ORCID = "0000-0001-9097-7381"))
)
Date: 2024-07-30
Description: Provides SummarizedExperiment-like containers for storing and
manipulating dimensionally-reduced assay data. The ReducedExperiment
classes allow users to simultaneously manipulate their original dataset
and their decomposed data, in addition to other method-specific outputs
like feature loadings. Implements utilities and specialised classes for the
application of stabilised independent component analysis (sICA) and
weighted gene correlation network analysis (WGCNA).
License: GPL (>= 3)
Encoding: UTF-8
Depends:
R (>= 4.4.0),
SummarizedExperiment,
methods
Imports:
WGCNA,
ica,
moments,
clusterProfiler,
msigdbr,
RColorBrewer,
car,
lme4,
lmerTest,
pheatmap,
biomaRt,
stats,
grDevices,
BiocParallel,
ggplot2,
patchwork,
BiocGenerics,
S4Vectors
Suggests:
knitr,
rmarkdown,
testthat,
biocViews,
BiocCheck,
BiocStyle,
airway
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.1
VignetteBuilder: knitr
URL: https://github.com/jackgisby/ReducedExperiment
BugReports: https://github.com/jackgisby/ReducedExperiment/issues
biocViews: GeneExpression, Infrastructure, DataRepresentation, Software,
DimensionReduction, Network
lshep
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