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. See Hafemeister and Satija (2019) <doi:10.1186/s13059-019-1874-1>, and Choudhary and Satija (2022) <doi:10.1186/s13059-021-02584-9> for more details.

Getting started

Package details

AuthorChristoph Hafemeister [aut] (<>), Saket Choudhary [aut, cre] (<>), Rahul Satija [ctb] (<>)
MaintainerSaket Choudhary <>
LicenseGPL-3 | file LICENSE
Package repositoryView on CRAN
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sctransform documentation built on Oct. 19, 2023, 9:08 a.m.