MeLSI
Metric Learning for Statistical Inference in Microbiome Analysis
Bioconductor version: 3.24 · Package version: 1.1.7
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
MeLSI (Metric Learning for Statistical Inference) is a novel machine learning method for microbiome data analysis that learns optimal distance metrics to improve statistical power in detecting group differences. Unlike traditional distance metrics (Bray-Curtis, Euclidean, Jaccard), MeLSI adapts to the specific characteristics of your dataset to maximize separation between groups. The method uses an ensemble of weak learners to identify which microbial features drive group differences, providing both improved statistical power and biological interpretability through feature importance weights.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MeLSI")Details
| Maintainer | Nathan Bresette <nathanbresette04@gmail.com> |
| Author | Nathan Bresette [aut, cre] (ORCID: <https://orcid.org/0009-0003-1554-6006>), Aaron C. Ericsson [aut] (ORCID: <https://orcid.org/0000-0002-3053-7269>), Carter Woods [aut] (ORCID: <https://orcid.org/0009-0007-5345-2712>), Ai-Ling Lin [aut, fnd] (ORCID: <https://orcid.org/0000-0002-5197-2219>) |
| License | MIT + file LICENSE |
| URL | https://github.com/NathanBresette/MeLSI |
| Bug Reports | https://github.com/NathanBresette/MeLSI/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Microbiome, Software, StatisticalMethod |
| Package Short Url | https://bioconductor.org/packages/MeLSI/ |
Citation
From within R, enter citation("MeLSI"):
Nathan Bresette, Aaron C. Ericsson, Carter Woods, Ai-Ling Lin. MeLSI: Metric Learning for Statistical Inference in Microbiome Analysis. doi:10.18129/B9.bioc.MeLSI, R package version 1.1.7, https://bioconductor.org/packages/MeLSI.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | MeLSI_1.1.7.tar.gz |
| Windows binary (x86_64) | MeLSI_1.1.7.zip |
| macOS binary (arm64) | MeLSI_1.1.7.tgz |
| macOS binary (x86_64) | MeLSI_1.1.7.tgz |
Dependencies
Depends: R (>= 4.5.0)
Imports: ggplot2, stats, utils, Rcpp
LinkingTo: Rcpp
Suggests: testthat, knitr, rmarkdown, BiocManager, BiocStyle, BiocParallel, Matrix, microbiome, phyloseq, vegan