Utsav Lamichhane.
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Algorithms in mbX Pro

Every step of the pipeline as a standalone reference — with copy-ready code and a companion slide deck. Each opens in a dedicated mbXPro tab.

01What is mbX ProThe pipeline, in brief 02How to use itSetup & workflow 03Algorithms in mbX ProAll documented steps
Tip: every step opens in the same window named mbXPro, so you can step through the pipeline without losing this index. Work through them in order, 0 → 18.
step 0 Primer Identifier (Pro) Detect & trim 16S primers automatically open ↗opens in mbXPro tab step 1 Manifest Builder Build the QIIME 2 import manifest open ↗opens in mbXPro tab step 2 Artifact Creator Import raw reads into QIIME 2 open ↗opens in mbXPro tab step 3 DADA2 Parameter Finder Choose truncation & trim lengths open ↗opens in mbXPro tab step 4 DADA2 Denoising Denoise reads into ASVs open ↗opens in mbXPro tab step 5 Classifier Arranger Prepare the reference classifier open ↗opens in mbXPro tab step 6 Classifier Run Train & apply the classifier open ↗opens in mbXPro tab step 7 Taxonomy CSVs Assign and export taxonomy open ↗opens in mbXPro tab step 8 ezclean per level Clean tables by taxonomic level open ↗opens in mbXPro tab step 9 ezviz Visualize community composition open ↗opens in mbXPro tab step 10 ezstat Statistical testing of taxa open ↗opens in mbXPro tab step 11 Pre-diversity Set rarefaction & depth parameters open ↗opens in mbXPro tab step 12 Alpha Diversity Within-sample diversity metrics open ↗opens in mbXPro tab step 13 Beta Diversity Between-sample diversity & ordination open ↗opens in mbXPro tab step 14 ANCOM-BC2 Differential abundance analysis open ↗opens in mbXPro tab step 15 PICRUSt2 Predicted functional profiling open ↗opens in mbXPro tab step 16 Random Forest Machine-learning classification open ↗opens in mbXPro tab step 17 Networks Microbial co-occurrence networks open ↗opens in mbXPro tab step 18 Final Report Assemble the publication-ready report open ↗opens in mbXPro tab