CRAN: Package SoupX

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: 1.6.2

Depends: R (≥ 3.5.0)

Imports: ggplot2, Matrix, methods, Seurat (≥ 3.2.2)

Suggests: knitr, rstan, DropletUtils, rmarkdown, formatR

Published: 2022年11月01日

DOI: 10.32614/CRAN.package.SoupX

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

In views: Omics

CRAN checks: SoupX results

Documentation:

Reference manual: SoupX.html , SoupX.pdf

Vignettes: PBMC Demonstration (source, R code)

Downloads:

Package source: SoupX_1.6.2.tar.gz

Windows binaries: r-devel: SoupX_1.6.2.zip, r-release: SoupX_1.6.2.zip, r-oldrel: SoupX_1.6.2.zip

macOS binaries: r-release (arm64): SoupX_1.6.2.tgz, r-oldrel (arm64): SoupX_1.6.2.tgz, r-release (x86_64): SoupX_1.6.2.tgz, r-oldrel (x86_64): SoupX_1.6.2.tgz

Old sources: SoupX archive

Reverse dependencies:

Reverse imports: singleCellTK

Reverse suggests: CRMetrics

Linking:

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