swh:1:snp:b1f86ebce403692a2c2ad98ea6d01904d9c3253a
Tip revision: 49a1be0427f2f26a531eb468ba93eeb18d8a2edb authored by satijalab on 13 December 2019, 20:42:25 UTC
Merge pull request #2416 from satijalab/develop
Merge pull request #2416 from satijalab/develop
Tip revision: 49a1be0
DESCRIPTION
Package: Seurat
Version: 3.1.2
Date: 2019-12-12
Title: Tools for Single Cell Genomics
Description: A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, and Butler A and Satija R (2017) <doi:10.1101/164889> for more details.
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 = c('aut', 'cre'), 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'))
)
URL: http://www.satijalab.org/seurat, https://github.com/satijalab/seurat
BugReports: https://github.com/satijalab/seurat/issues
Additional_repositories: https://mojaveazure.github.io/loomR
Depends:
R (>= 3.4.0),
methods,
Imports:
ape,
cluster,
cowplot,
fitdistrplus,
future,
future.apply,
ggplot2 (>= 3.0.0),
ggrepel,
ggridges,
graphics,
grDevices,
grid,
httr,
ica,
igraph,
irlba,
KernSmooth,
leiden (>= 0.3.1),
lmtest,
MASS,
Matrix (>= 1.2-14),
metap,
pbapply,
plotly,
png,
RANN,
RColorBrewer,
Rcpp,
RcppAnnoy,
reticulate,
rlang,
ROCR,
rsvd,
Rtsne,
scales,
sctransform (>= 0.2.0),
SDMTools,
stats,
tools,
tsne,
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'
'integration.R'
'objects.R'
'preprocessing.R'
'tree.R'
'utilities.R'
'zzz.R'
RoxygenNote: 7.0.2
Encoding: UTF-8
biocViews:
Suggests:
loomR,
testthat,
hdf5r,
S4Vectors,
SummarizedExperiment,
SingleCellExperiment,
MAST,
DESeq2,
BiocGenerics,
GenomicRanges,
GenomeInfoDb,
IRanges,
rtracklayer,
monocle,
Biobase,
VGAM