DR.SC: Joint Dimension Reduction and Spatial Clustering

Joint dimension reduction and spatial clustering is conducted for Single-cell RNA sequencing and spatial transcriptomics data, and more details can be referred to Wei Liu, Xu Liao, Yi Yang, Huazhen Lin, Joe Yeong, Xiang Zhou, Xingjie Shi and Jin Liu. (2022) <doi:10.1101/2021.12.25.474153>. It is not only computationally efficient and scalable to the sample size increment, but also is capable of choosing the smoothness parameter and the number of clusters as well.

Version: 2.7
Depends: parallel, spatstat.geom, R (≥ 4.0.0)
Imports: CompQuadForm, cowplot, ggplot2, GiRaF, MASS, Matrix, mclust, methods, purrr, S4Vectors, RColorBrewer, Rcpp (≥ 1.0.5), Seurat, stats
LinkingTo: Rcpp, RcppArmadillo
Suggests: knitr, rmarkdown
Published: 2022-02-25
Author: Wei Liu [aut, cre], Yi Yang [aut], Xingjie Shi [aut], Jin Liu [aut]
Maintainer: Wei Liu <wei.liu at duke-nus.edu.sg>
License: GPL-3
NeedsCompilation: yes
Materials: README
CRAN checks: DR.SC results

Documentation:

Reference manual: DR.SC.pdf
Vignettes: DR-SC
DR-SC DLPFC
DR-SC Simulation

Downloads:

Package source: DR.SC_2.7.tar.gz
Windows binaries: r-devel: DR.SC_2.7.zip, r-release: DR.SC_2.7.zip, r-oldrel: not available
macOS binaries: r-release (arm64): DR.SC_2.7.tgz, r-release (x86_64): DR.SC_2.7.tgz, r-oldrel: DR.SC_2.7.tgz
Old sources: DR.SC archive

Linking:

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