MRC Shotgun metagenomics Pipeline (MIMA)

MIMA Pipeline

The MIMA Pipeline contains two fundamental components and the tutorials are split as such:

1. Data processing

   • checks the quality of shotgun metagenomics sequence reads
   • detects what taxa (phylum to species) are present in the samples and generates taxonomy feature tables
   • detects what genes (families and pathways) are present in the samples and generates function feature tables

2. Analytics

   • core biodiversity analysis (e.g., alpha-diversity, beta-diversity and differential abundance analyses) and comparisons between groups
   • classification analysis

Getting started

If you are new to shotgun metagenomics processing, or have not heard of Apptainer/Singularity before, then start with “What are Container images?”