A beginner-friendly Quarto website covering microbiome bioinformatic tools, focusing on the Biobakery suite developed by the Huttenhower and Segata labs.
🌐 Live site: https://mcphersonlab.github.io/microbiomefordummies/
| Tool | Description |
|---|---|
| HUMAnN | Functional profiling of metagenomes |
| MetaPhlAn | Taxonomic profiling from shotgun metagenomics |
| PICRUSt2 | Predict metagenome function from 16S data |
| PhyloPhlAn | High-resolution microbial phylogenetics |
| StrainPhlAn | Strain-level metagenomic profiling |
| ShortBRED | Identify and quantify protein families |
| WAAFLE | Detect horizontal gene transfer events |
| MACARRoN | Metabolome prioritization |
| metawibele | Microbial protein function characterization |
| baqlava | Viral profiling from metagenomes |
| MaAsLin2 | Multivariable association discovery |
| anpan | Pan-genome statistical models |
| CCREPE | Compositional data correlation |
This site is built with Quarto and deployed to GitHub Pages via GitHub Actions.
# Install Quarto: https://quarto.org/docs/get-started/
quarto previewThe site is automatically rendered and deployed when changes are pushed to main via the GitHub Actions workflow in .github/workflows/publish.yml.