sctransform: Variance Stabilizing Transformations for Single Cell UMI Data

A normalization method for single-cell UMI count data using a variance stabilizing transformation. The transformation is based on a negative binomial regression model with regularized parameters. As part of the same regression framework, this package also provides functions for batch correction, and data correction/denoising.

Version: 0.1.0
Depends: R (≥ 2.10)
Imports: MASS, Matrix, parallel, methods
Suggests: matrixStats, testthat
Published: 2018-11-18
Author: Christoph Hafemeister ORCID iD [aut, cre]
Maintainer: Christoph Hafemeister <chafemeister at nygenome.org>
BugReports: https://github.com/ChristophH/sctransform/issues
License: GPL-3 | file LICENSE
URL: https://github.com/ChristophH/sctransform
NeedsCompilation: no
Materials: README
CRAN checks: sctransform results

Downloads:

Reference manual: sctransform.pdf
Package source: sctransform_0.1.0.tar.gz
Windows binaries: r-devel: sctransform_0.1.0.zip, r-release: sctransform_0.1.0.zip, r-oldrel: sctransform_0.1.0.zip
OS X binaries: r-release: sctransform_0.1.0.tgz, r-oldrel: sctransform_0.1.0.tgz

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