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> for more details.
| Version: |
0.3.1 |
| Depends: |
R (≥ 3.1.0) |
| Imports: |
MASS, Matrix, methods, future.apply, future, ggplot2, reshape2, gridExtra, matrixStats |
| LinkingTo: |
RcppArmadillo, Rcpp (≥ 0.11.0) |
| Suggests: |
irlba, testthat, knitr |
| Enhances: |
glmGamPoi |
| Published: |
2020-10-08 |
| Author: |
Christoph Hafemeister
 [aut, cre] |
| Maintainer: |
Christoph Hafemeister <christoph.hafemeister at nyu.edu> |
| BugReports: |
https://github.com/ChristophH/sctransform/issues |
| License: |
GPL-3 | file LICENSE |
| URL: |
https://github.com/ChristophH/sctransform |
| NeedsCompilation: |
yes |
| SystemRequirements: |
C++11 |
| Citation: |
sctransform citation info |
| Materials: |
README NEWS |
| CRAN checks: |
sctransform results |