Metagenomic Intra-Species Diversity Analysis System (MIDAS)
MIDAS is an integrated pipeline that leverages >30,000 reference genomes to estimate bacterial species abundance and strain-level genomic variation, including gene content and SNPs, from shotgun metagnomes.
Table of Contents
- Getting started
- Reference databse
- Run MIDAS on a single sample:
- Merge MIDAS results across samples:
- Example scripts for analyzing gene content and SNPs: