Skip to content

MIDAS

Description

midas website

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.

Environment Modules

Run module spider midas to find out what environment modules are available for this application.

Environment Variables

  • HPC_MIDAS_DIR - installation directory
  • HPC_MIDAS_BIN - executable directory

Citation

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

Nayfach, S., Rodriguez-Mueller, B., Garud, N., & Pollard, K. S. (2016). An integrated metagenomics pipeline for strain profiling reveals novel patterns of transmission and global biogeography of bacteria. Genome Research, 26(11), 1612–1625. https://doi.org/10.1101/gr.201863.115

Categories

biology, phylogenetics