swh:1:snp:b1f86ebce403692a2c2ad98ea6d01904d9c3253a
Tip revision: bbc649880bc6d5abc9ea978c4b437ecfc3232c3d authored by Andrew Butler on 03 February 2020, 20:53:10 UTC
add moran's I as method for spatially variable features
add moran's I as method for spatially variable features
Tip revision: bbc6498
DESCRIPTION
Package: Seurat
Version: 3.1.2.9010
Date: 2020-01-23
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,
crosstalk,
fitdistrplus,
future,
future.apply,
ggplot2 (>= 3.0.0),
ggrepel,
ggridges,
graphics,
grDevices,
grid,
httr,
ica,
igraph,
irlba,
jsonlite,
KernSmooth,
leiden (>= 0.3.1),
lmtest,
MASS,
Matrix (>= 1.2-14),
metap,
pbapply,
plotly (>= 4.9.0),
png,
RANN,
RColorBrewer,
Rcpp,
RcppAnnoy,
reticulate,
rlang,
ROCR,
rsvd,
Rtsne,
scales,
sctransform (>= 0.2.0),
SDMTools,
spatstat,
stats,
tibble,
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'
'spatial.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