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DESCRIPTION
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DESCRIPTION
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Type: Package
Package: tidybulk
Title: Brings transcriptomics to the tidyverse
Version: 1.17.3
Authors@R: c(person("Stefano", "Mangiola", email = "mangiolastefano@gmail.com",
role = c("aut", "cre")),
person("Maria", "Doyle", email = "Maria.Doyle@petermac.org",
role = c("ctb"))
)
Description: This is a collection of utility functions that allow
to perform exploration of and calculations to RNA sequencing data, in
a modular, pipe-friendly and tidy fashion.
License: GPL-3
Depends:
R (>= 4.4.0),
ttservice (>= 0.3.6)
Imports:
tibble,
readr,
dplyr (>= 1.1.0),
magrittr,
tidyr,
stringi,
stringr,
rlang,
purrr,
tidyselect,
preprocessCore,
stats,
parallel,
utils,
lifecycle,
scales,
SummarizedExperiment,
GenomicRanges,
methods,
S4Vectors,
crayon,
Matrix
Suggests:
BiocStyle,
testthat,
vctrs,
AnnotationDbi,
BiocManager,
Rsubread,
e1071,
edgeR,
limma,
org.Hs.eg.db,
org.Mm.eg.db,
sva,
GGally,
knitr,
qpdf,
covr,
Seurat,
KernSmooth,
Rtsne,
ggplot2,
widyr,
clusterProfiler,
msigdbr,
DESeq2,
broom,
survival,
boot,
betareg,
tidyHeatmap,
pasilla,
ggrepel,
devtools,
functional,
survminer,
tidySummarizedExperiment,
markdown,
uwot,
matrixStats,
igraph,
EGSEA,
IRanges,
here,
glmmSeq,
pbapply,
pbmcapply,
lme4,
glmmTMB,
MASS,
pkgconfig
VignetteBuilder:
knitr
RdMacros:
lifecycle
Biarch: true
biocViews: AssayDomain, Infrastructure, RNASeq, DifferentialExpression, GeneExpression, Normalization, Clustering, QualityControl, Sequencing, Transcription, Transcriptomics
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.1
LazyDataCompression: xz
URL: https://github.com/stemangiola/tidybulk
BugReports: https://github.com/stemangiola/tidybulk/issues