CRAN/E | SparseDC

SparseDC

Implementation of SparseDC Algorithm

Installation

About

Implements the algorithm described in Barron, M., Zhang, S. and Li, J. 2017, "A sparse differential clustering algorithm for tracing cell type changes via single-cell RNA-sequencing data", Nucleic Acids Research, gkx1113, doi:10.1093/nar/gkx1113. This algorithm clusters samples from two different populations, links the clusters across the conditions and identifies marker genes for these changes. The package was designed for scRNA-Seq data but is also applicable to many other data types, just replace cells with samples and genes with variables. The package also contains functions for estimating the parameters for SparseDC as outlined in the paper. We recommend that users further select their marker genes using the magnitude of the cluster centers.

Key Metrics

Version 0.1.17
R ≥ 3.1.0
Published 2018-01-04 2154 days ago
Needs compilation? no
License GPL-3
CRAN checks SparseDC results

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Maintainer

Maintainer

Jun Li

jun.li@nd.edu

Authors

Jun Li

aut / cre

Martin Barron

aut

Material

Reference manual
Package source

Vignettes

sparseDC

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

SparseDC archive

Depends

R ≥ 3.1.0

Imports

stats

Suggests

knitr
rmarkdown

Reverse Suggests

splatter