glmGamPoi

DOI: 10.18129/B9.bioc.glmGamPoi    

Fit a Gamma-Poisson Generalized Linear Model

Bioconductor version: Release (3.12)

Fit linear models to overdispersed count data. The package can estimate the overdispersion and fit repeated models for matrix input. It is designed to handle large input datasets as they typically occur in single cell RNA-seq experiments.

Author: Constantin Ahlmann-Eltze [aut, cre] , Michael Love [ctb]

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

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

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("glmGamPoi")

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

Documentation

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

browseVignettes("glmGamPoi")

 

HTML R Script glmGamPoi Quickstart
PDF   Reference Manual
Text   NEWS

Details

biocViews RNASeq, Regression, SingleCell, Software
Version 1.2.0
In Bioconductor since BioC 3.11 (R-4.0) (0.5 years)
License GPL-3
Depends
Imports Rcpp, DelayedMatrixStats, matrixStats, DelayedArray, HDF5Array, SummarizedExperiment, methods, stats, utils, splines
LinkingTo Rcpp, RcppArmadillo, beachmat
Suggests testthat (>= 2.1.0), zoo, DESeq2, edgeR, limma, beachmat, MASS, statmod, ggplot2, bench, BiocParallel, knitr, rmarkdown, BiocStyle, TENxPBMCData, scran
SystemRequirements C++11
Enhances
URL https://github.com/const-ae/glmGamPoi
BugReports https://github.com/const-ae/glmGamPoi/issues
Depends On Me
Imports Me
Suggests Me DESeq2
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package glmGamPoi_1.2.0.tar.gz
Windows Binary glmGamPoi_1.2.0.zip
macOS 10.13 (High Sierra) glmGamPoi_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/glmGamPoi
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/glmGamPoi
Package Short Url https://bioconductor.org/packages/glmGamPoi/
Package Downloads Report Download Stats

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