Package: sctransform
Type: Package
Title: Variance Stabilizing Transformations for Single Cell UMI Data
Version: 0.3.5
Date: 2022-09-21
Authors@R: c(
  person(given = "Christoph", family = "Hafemeister", email = "christoph.hafemeister@nyu.edu", role = "aut", comment = c(ORCID = "0000-0001-6365-8254")),
  person(given = "Saket", family = "Choudhary", email = "schoudhary@nygenome.org", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-5202-7633")),
  person(given = "Rahul", family = "Satija", email = "rsatija@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0001-9448-8833"))
  )
Description: 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.
URL: https://github.com/satijalab/sctransform
BugReports: https://github.com/satijalab/sctransform/issues
License: GPL-3 | file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
LinkingTo: RcppArmadillo, Rcpp (>= 0.11.0)
SystemRequirements: C++11
Imports: dplyr, magrittr, MASS, Matrix (>= 1.5.0), methods,
        future.apply, future, ggplot2, reshape2, rlang, gridExtra,
        matrixStats
Suggests: irlba, testthat, knitr
Enhances: glmGamPoi
RoxygenNote: 7.2.1
NeedsCompilation: yes
Packaged: 2022-09-21 16:33:54 UTC; choudharys
Author: Christoph Hafemeister [aut] (<https://orcid.org/0000-0001-6365-8254>),
  Saket Choudhary [aut, cre] (<https://orcid.org/0000-0001-5202-7633>),
  Rahul Satija [ctb] (<https://orcid.org/0000-0001-9448-8833>)
Maintainer: Saket Choudhary <schoudhary@nygenome.org>
Repository: CRAN
Date/Publication: 2022-09-21 17:10:07 UTC
Built: R 4.1.3; x86_64-w64-mingw32; 2023-04-17 17:55:11 UTC; windows
Archs: i386, x64
