SoupX: Single Cell mRNA Soup eXterminator

Quantify, profile and remove ambient mRNA contamination (the "soup") from droplet based single cell RNA-seq experiments. Implements the method described in Young et al. (2018) <doi:10.1101/303727>.

Version: 1.4.8
Depends: R (≥ 3.5.0)
Imports: ggplot2, Matrix, methods, Seurat
Suggests: knitr, rstan, DropletUtils, rmarkdown, formatR
Published: 2020-10-15
Author: Matthew Daniel Young
Maintainer: Matthew Daniel Young <my4 at sanger.ac.uk>
License: GPL-2
URL: https://github.com/constantAmateur/SoupX
NeedsCompilation: no
Citation: SoupX citation info
Materials: README
CRAN checks: SoupX results

Downloads:

Reference manual: SoupX.pdf
Vignettes: PBMC Demonstration
Package source: SoupX_1.4.8.tar.gz
Windows binaries: r-devel: SoupX_1.4.8.zip, r-release: SoupX_1.4.8.zip, r-oldrel: SoupX_1.4.8.zip
macOS binaries: r-release: SoupX_1.4.8.tgz, r-oldrel: SoupX_1.4.8.tgz
Old sources: SoupX archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=SoupX to link to this page.