Maaslin2
"Multivariable Association Discovery in Population-scale Meta-omics Studies"
Bioconductor version: 3.23 · Package version: 1.26.0
MaAsLin2 is comprehensive R package for efficiently determining multivariable association between clinical metadata and microbial meta'omic features. MaAsLin2 relies on general linear models to accommodate most modern epidemiological study designs, including cross-sectional and longitudinal, and offers a variety of data exploration, normalization, and transformation methods. MaAsLin2 is the next generation of MaAsLin.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Maaslin2")Details
| Maintainer | Sagun Maharjan <sagunmaharjann@gmail.com> |
| Author | Himel Mallick [aut], Ali Rahnavard [aut], Thomas Kuntz [aut], Sagun Maharjan [aut, cre] |
| License | MIT + file LICENSE |
| URL | http://huttenhower.sph.harvard.edu/maaslin2 |
| Bug Reports | https://github.com/biobakery/maaslin2/issues |
| Downloads rank | 1240 |
| Source branch | RELEASE_3_23 |
| biocViews | Metagenomics, Microbiome, Normalization, Software |
Documentation
Download
Dependencies
Depends: R (>= 3.6)
Imports: robustbase, biglm, pcaPP, edgeR, metagenomeSeq, pbapply, car, dplyr, vegan, chemometrics, ggplot2, pheatmap, logging, data.table, lmerTest, hash, optparse, grDevices, stats, utils, glmmTMB, MASS, cplm, pscl, lme4, tibble
Suggests: knitr, testthat (>= 2.1.0), rmarkdown, markdown