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:10.1101/576827> for more details.
| Version: |
0.2.0 |
| Depends: |
R (≥ 3.0.2) |
| Imports: |
MASS, Matrix, methods, future, future.apply, ggplot2, reshape2, gridExtra, Rcpp |
| LinkingTo: |
Rcpp (≥ 0.11.0), RcppEigen |
| Suggests: |
irlba, testthat |
| Published: |
2019-04-12 |
| Author: |
Christoph Hafemeister  [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: |
yes |
| Materials: |
README |
| CRAN checks: |
sctransform results |