stayn1ght / microbiome_analysis

microbiome_analysis in brief

qiime2 pipeline are used for human gut microbiome analysis

incuding 16s ITS 18s sequencing data

interactive plot is used for prevalence and abundance analysis.

biomarker the script are used to conduct LEfSe analysis using R package 'microbiomeMarker'

qiime2_analyse qiime2 analysis pipeline for ITS and 18S sequencing data.

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analysis pipeline

download data

including raw data and metadata prepared

curate metadata

here we introduce MeSH to curate disease

qiime analysis

get the genus table, and process it to relative abundance and long format

we introduce ncbi taxonomy id to annotate the taxon(genus)

lefse analysis

prevalence vs. abundance