apeglm
Approximate posterior estimation for GLM coefficients
Bioconductor version: Release (3.19)
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 "4.4") and enter:
if (!require("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")| Effect size estimation with apeglm | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Bayesian, DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software |
| Version | 1.26.1 |
| In Bioconductor since | BioC 3.6 (R-3.4) (7 years) |
| License | GPL-2 |
| Depends | |
| Imports | emdbook, SummarizedExperiment, GenomicRanges, methods, stats, utils, Rcpp |
| System Requirements | |
| URL |
See More
| Suggests | DESeq2, airway, knitr, rmarkdown, testthat |
| Linking To | Rcpp, RcppEigen, RcppNumerical |
| Enhances | |
| Depends On Me | rnaseqGene |
| Imports Me | DiffBind, ERSSA, Rmmquant, TEKRABber, airpart, debrowser |
| Suggests Me | DESeq2, bambu, dar, extraChIPs, fishpond, NanoporeRNASeq, RNAseqQC |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | apeglm_1.26.1.tar.gz |
| Windows Binary (x86_64) | apeglm_1.26.1.zip (64-bit only) |
| macOS Binary (x86_64) | apeglm_1.26.1.tgz |
| macOS Binary (arm64) | apeglm_1.26.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/apeglm |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/apeglm |
| Bioc Package Browser | https://code.bioconductor.org/browse/apeglm/ |
| Package Short Url | https://bioconductor.org/packages/apeglm/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.19 | Source Archive |