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Variance Stabilizing Transformation for Gamma-Poisson Models

Bioconductor version: Release (3.18)

Variance-stabilizing transformations help with the analysis of heteroskedastic data (i.e., data where the variance is not constant, like count data). This package provide two types of variance stabilizing transformations: (1) methods based on the delta method (e.g., 'acosh', 'log(x+1)'), (2) model residual based (Pearson and randomized quantile residuals).

Author: Constantin Ahlmann-Eltze [aut, cre]

Maintainer: Constantin Ahlmann-Eltze <artjom31415 at googlemail.com>

Citation (from within R, enter citation("transformGamPoi")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

glmGamPoi Quickstart HTML R Script
Reference Manual PDF


biocViews Normalization, Preprocessing, Regression, SingleCell, Software
Version 1.8.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License GPL-3
Imports glmGamPoi, DelayedArray, Matrix, MatrixGenerics, SummarizedExperiment, HDF5Array, methods, utils, Rcpp
System Requirements
URL https://github.com/const-ae/transformGamPoi
Bug Reports https://github.com/const-ae/transformGamPoi/issues
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Suggests testthat, TENxPBMCData, scran, knitr, rmarkdown, BiocStyle
Linking To Rcpp
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Follow Installation instructions to use this package in your R session.

Source Package transformGamPoi_1.8.0.tar.gz
Windows Binary transformGamPoi_1.8.0.zip
macOS Binary (x86_64)
macOS Binary (arm64) transformGamPoi_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/transformGamPoi
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/transformGamPoi
Bioc Package Browser https://code.bioconductor.org/browse/transformGamPoi/
Package Short Url https://bioconductor.org/packages/transformGamPoi/
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