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DESCRIPTION
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DESCRIPTION
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Package: SeuratBasics
Version: 0.0.99
Date: 2020-04-12
Title: Slimmed down version of Seurat
Description:
Seurat is an awesome package for scRNA-seq data analysis, but its numerous
dependencies means that it takes a long time to install Seurat on Linux
systems. This is a slimmed down version of Seurat, only keeping the most
commonly used features, to reduce the number of dependencies. This is very
helpful for Google Colab tutorials using Seurat and for web services that
involve Seurat but are impeded by the numerous dependencies.
Authors@R: c(
person(given = 'Rahul', family = 'Satija', email = 'rsatija@nygenome.org', role = 'aut', comment = c(ORCID = '0000-0001-9448-8833')),
person(given = 'Andrew', family = 'Butler', email = 'abutler@nygenome.org', role = 'aut', comment = c(ORCID = '0000-0003-3608-0463')),
person(given = 'Paul', family = 'Hoffman', email = 'nygcSatijalab@nygenome.org', role = "aut", comment = c(ORCID = '0000-0002-7693-8957')),
person(given = 'Tim', family = 'Stuart', email = 'tstuart@nygenome.org', role = 'aut', comment = c(ORCID = '0000-0002-3044-0897')),
person(given = 'Jeff', family = 'Farrell', email = 'jfarrell@g.harvard.edu', role = 'ctb'),
person(given = 'Shiwei', family = 'Zheng', email = 'szheng@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0001-6682-6743')),
person(given = 'Christoph', family = 'Hafemeister', email = 'chafemeister@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0001-6365-8254')),
person(given = 'Patrick', family = 'Roelli', email = 'proelli@nygenome.org', role = 'ctb'),
person(given = "Yuhan", family = "Hao", email = 'yhao@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0002-1810-0822')),
person(given = "Lambda", family = "Moses", email = "dlu2@caltech.edu", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-7092-9427")),
person(given = "Lior", family = "Pachter", email = "lpachter@caltech.edu", role = c("aut", "ths"), comment = c(ORCID = "0000-0002-9164-6231"))
)
URL: https://github.com/lambdamoses/SeuratBasics
BugReports: https://github.com/lambdamoses/SeuratBasics/issues
Depends:
R (>= 3.4.0),
methods,
Imports:
cowplot,
future,
future.apply,
ggplot2 (>= 3.0.0),
ggrepel,
ggridges,
graphics,
grDevices,
grid,
igraph,
irlba,
lmtest,
MASS,
Matrix (>= 1.2-14),
patchwork,
pbapply,
png,
RANN,
RColorBrewer,
Rcpp,
Rtsne,
scales,
sctransform (>= 0.2.0),
stats,
tools,
utils,
uwot (>= 0.1.5)
LinkingTo: Rcpp (>= 0.11.0), RcppEigen, RcppProgress
License: GPL-3 | file LICENSE
LazyData: true
Collate:
'RcppExports.R'
'generics.R'
'clustering.R'
'visualization.R'
'convenience.R'
'data.R'
'differential_expression.R'
'dimensional_reduction.R'
'objects.R'
'preprocessing.R'
'utilities.R'
'zzz.R'
RoxygenNote: 7.1.0
Encoding: UTF-8
biocViews:
Suggests:
cluster,
fitdistrplus,
KernSmooth,
loomR,
leidenbase,
SDMTools,
testthat,
hdf5r,
S4Vectors,
SummarizedExperiment,
SingleCellExperiment,
MAST,
DESeq2,
BiocGenerics,
GenomicRanges,
GenomeInfoDb,
ROCR,
IRanges,
monocle,
Biobase,
VGAM