QIIME 2 Docs

Available pluginsΒΆ

QIIME 2 microbiome analysis functionality is made available to users via plugins. The following official plugins are currently included in QIIME 2 train releases:

  • autopepsirf
    • Pipelines
      • diffEnrich: diffEnrich Pepsirf Pipeline
      • diffEnrich-deconv: diffEnrich deconv Pepsirf Pipeline
      • diffEnrich-deconv-tsv: diffEnrich deconv Pepsirf Pipeline
      • diffEnrich-tsv: diffEnrich tsv Pepsirf Pipeline
  • pepsirf
    • Methods
      • bin: pepsirf bin module
      • deconv-batch: pepsirf deconv batch mode module
      • deconv-singular: pepsirf deconv singular mode module
      • demux: pepsirf demux module
      • enrich: pepsirf enrich module
      • infoSNPN: pepsirf info (samples/peptide names) module
      • infoSumOfProbes: pepsirf info (sum of probes) module
      • link: pepsirf link module
      • norm: pepsirf norm module
      • subjoin: pepsirf subjoin module
      • zscore: pepsirf zscore module
  • ps-plot
    • Pipelines
      • mutantScatters-tsv: Mutant Scatters
      • proteinHeatmap-dir: Protein Alignment Heatmap Dir
      • repScatters-tsv: Rep Scatter TSV
      • zenrich-tsv: zenrich TSV Pipeline
    • Visualizers
      • enrichmentRCBoxplot: Enriched Read Counts BoxPlot
      • mutantScatters: Mutant Scatters
      • proteinHeatmap: Protein Alignment Heatmap
      • readCountsBoxplot: Read Counts BoxPlot
      • repScatters: Rep Scatter
      • volcano: Volcano Visualizer
      • zenrich: Z Enrichment Variance Visualizer
      • zscatter: Z Score Scatter Visualization

Table of Contents

  • Tutorials
  • Available plugins
    • autopepsirf
    • pepsirf
    • ps-plot
  • Installation
  • QIIME 2 Import and Export
  • TSV/Dir Pipelines

Quick search

© Copyright 2021, Ladner Labs. Created using Sphinx 7.1.2.