DESCRIPTION

Package: sctransform
Type: Package
Title: Variance Stabilizing Transformations for Single Cell UMI Data
Version: 0.4.1
Date: 2023-10-18
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 (>= 3.6.0)
LinkingTo: RcppArmadillo, Rcpp (>= 0.11.0)
SystemRequirements: C++17
Imports:
  dplyr,
  magrittr,
  MASS,
  Matrix (>= 1.5-0),
  methods,
  future.apply,
  future,
  ggplot2,
  reshape2,
  rlang,
  gridExtra,
  matrixStats
Suggests:
  irlba,
  testthat,
  knitr
Enhances:
  glmGamPoi
RoxygenNote: 7.2.3