Difference between revisions of "MIDAS"
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Revision as of 21:21, 6 December 2019
Description
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.