apeglm

DOI: 10.18129/B9.bioc.apeglm    

Approximate posterior estimation for GLM coefficients

Bioconductor version: Release (3.10)

apeglm provides Bayesian shrinkage estimators for effect sizes for a variety of GLM models, using approximation of the posterior for individual coefficients.

Author: Anqi Zhu [aut, cre], Joshua Zitovsky [ctb], Joseph Ibrahim [aut], Michael Love [aut]

Maintainer: Anqi Zhu <anqizhu at live.unc.edu>

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

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("apeglm")

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("apeglm")

 

HTML R Script Effect size estimation with apeglm
PDF   Reference Manual
Text   NEWS

Details

biocViews Bayesian, DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software
Version 1.8.0
In Bioconductor since BioC 3.6 (R-3.4) (2 years)
License GPL-2
Depends
Imports emdbook, SummarizedExperiment, GenomicRanges, methods, stats, utils, Rcpp
LinkingTo Rcpp, RcppEigen, RcppNumerical
Suggests DESeq2, airway, knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL
Depends On Me rnaseqGene
Imports Me
Suggests Me DESeq2, fishpond
Links To Me
Build Report  

Package Archives

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

Source Package apeglm_1.8.0.tar.gz
Windows Binary apeglm_1.8.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) apeglm_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/apeglm
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/apeglm
Package Short Url https://bioconductor.org/packages/apeglm/
Package Downloads Report Download Stats

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