MIDAS

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Description

midas website  

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.

Required Modules

Serial

  • gcc/5.2.0
  • midas

System Variables

  • HPC_MIDAS_DIR - installation directory




Citation

If you publish research that uses midas you have to cite it as follows:

Nayfach, S. and Pollard, KS. "Population genetic analyses of metagenomes reveal extensive strain-level variation in prevalent human-associated bacteria". bioRxiv 2015.