Package: MeLSI 1.0.0
MeLSI: Metric Learning for Statistical Inference in Microbiome Analysis
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.
Authors:
MeLSI_1.0.0.tar.gz
MeLSI_1.0.0.zip(r-4.7)MeLSI_1.0.0.zip(r-4.6)MeLSI_1.0.0.zip(r-4.5)
MeLSI_1.0.0.tgz(r-4.6-any)MeLSI_1.0.0.tgz(r-4.5-any)
MeLSI_1.0.0.tar.gz(r-4.7-any)MeLSI_1.0.0.tar.gz(r-4.6-any)
MeLSI_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
MeLSI/json (API)
NEWS
| # Install 'MeLSI' in R: |
| install.packages('MeLSI', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/nathanbresette/melsi/issues
On BioConductor:MeLSI-1.1.0(bioc 3.24)MeLSI-1.0.0(bioc 3.23)
softwarestatisticalmethodmicrobiome
Last updated from:ce5c7eefff (on RELEASE_3_23). Checks:1 NOTE, 9 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 183 | ||
| linux-devel-x86_64 | OK | 301 | ||
| source / vignettes | OK | 269 | ||
| linux-release-x86_64 | OK | 336 | ||
| macos-release-arm64 | OK | 184 | ||
| macos-oldrel-arm64 | OK | 154 | ||
| windows-devel | OK | 241 | ||
| windows-release | OK | 220 | ||
| windows-oldrel | OK | 229 | ||
| wasm-release | OK | 146 |
Exports:clr_transformgenerate_test_datamelsiplot_feature_importanceplot_pcoaplot_vip
Dependencies:ade4apeBiobaseBiocGenericsbiomformatBiostringscliclustercodetoolscpp11crayondata.tabledigestfarverforeachgenericsggplot2gluegtableigraphIRangesisobanditeratorsjsonlitelabelinglatticelifecyclemagrittrMASSMatrixmgcvmulttestnlmepermutephyloseqpixmappkgconfigplyrR6RColorBrewerRcppRcppArmadilloreshape2rlangS4VectorsS7scalesSeqinfospstringistringrsurvivalvctrsveganviridisLitewithrXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| CLR Transformation for Microbiome Data | clr_transform |
| Generate Synthetic Microbiome Data for Testing | generate_test_data |
| Run MeLSI Analysis | melsi |
| Plot Feature Importance from MeLSI Analysis | plot_feature_importance |
| Plot PCoA from MeLSI Results | plot_pcoa |
| Plot VIP from MeLSI Results (User-Friendly Wrapper) | plot_vip |
