swh:1:snp:0da231f3ffdb3226650880f1b61d5d5cdcbd749b
Tip revision: 65b77a9480281ef9ab1aa8816f7c781752092c18 authored by Paul Hoffman on 02 July 2018, 16:28:26 UTC
Update CRAN comments
Update CRAN comments
Tip revision: 65b77a9
DESCRIPTION
Package: Seurat
Version: 2.3.3
Date: 2018-07-02
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 = 'seuratpackage@gmail.com', role = c('aut', 'cre'), comment = c(ORCID = '0000-0002-7693-8957')),
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')
)
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),
ggplot2,
cowplot,
Matrix (>= 1.2.14),
SystemRequirements: Java (>= 6)
Imports:
methods,
ROCR,
mixtools,
lars,
ica,
tsne,
Rtsne,
fpc,
ape,
pbapply,
igraph,
RANN,
dplyr,
RColorBrewer,
MASS,
irlba,
reshape2,
gplots,
Rcpp (>= 0.11.0),
dtw,
SDMTools,
plotly,
diffusionMap,
Hmisc,
tidyr,
ggridges,
metap,
lmtest,
cluster,
fitdistrplus,
png,
doSNOW,
reticulate,
foreach,
hdf5r
LinkingTo: Rcpp (>= 0.11.0), RcppEigen, RcppProgress
License: GPL-3 | file LICENSE
LazyData: true
Collate:
'RcppExports.R'
'alignment.R'
'seurat.R'
'conversion.R'
'as.R'
'cluster_determination.R'
'cluster_determination_internal.R'
'cluster_validation.R'
'data.R'
'deprecated_functions.R'
'differential_expression.R'
'differential_expression_internal.R'
'dimensional_reduction.R'
'dimensional_reduction_internal.R'
'dimensional_reduction_utilities.R'
'interaction.R'
'jackstraw.R'
'jackstraw_internal.R'
'multi_modal.R'
'plotting.R'
'plotting_internal.R'
'plotting_utilities.R'
'preprocessing.R'
'preprocessing_internal.R'
'printing_utilities.R'
'scoring.R'
'snn.R'
'spatial.R'
'spatial_internal.R'
'tSNE_project.R'
'utilities.R'
'utilities_internal.R'
'zfRenderSeurat.R'
RoxygenNote: 6.0.1
Suggests:
gdata,
VGAM,
tclust,
testthat,
caret,
ranger,
loomR,
phateR,
S4Vectors,
SummarizedExperiment,
SingleCellExperiment,
MAST,
DESeq2