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.


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install.packages("sctransform")

0.1.0 by Christoph Hafemeister, 3 months ago


https://github.com/ChristophH/sctransform


Report a bug at https://github.com/ChristophH/sctransform/issues


Browse source code at https://github.com/cran/sctransform


Authors: Christoph Hafemeister [aut, cre]


Documentation:   PDF Manual  


GPL-3 | file LICENSE license


Imports MASS, Matrix, parallel, methods

Suggests matrixStats, testthat


See at CRAN