swh:1:snp:b1f86ebce403692a2c2ad98ea6d01904d9c3253a
Tip revision: 87e2454817ed1d5d5aa2e9c949b9231f2231802f authored by Paul Hoffman on 11 February 2020, 21:52:16 UTC
Merge pull request #2605 from satijalab/develop
Merge pull request #2605 from satijalab/develop
Tip revision: 87e2454
DESCRIPTION
Package: Seurat
Version: 3.1.3
Date: 2020-02-07
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),
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,
SDMTools,
testthat,
hdf5r,
S4Vectors,
SummarizedExperiment,
SingleCellExperiment,
MAST,
DESeq2,
BiocGenerics,
GenomicRanges,
GenomeInfoDb,
IRanges,
rtracklayer,
monocle,
Biobase,
VGAM