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With this script, we use SIAMCAT to recapitulate the analysis from Forslund et al., which identified Metformin-treatment as a potential confounder for Type II diabetes studies. The analysis includes:

  • the variance decomposition analysis for Metformin
  • an example plot for Enterobacteriacaea (specI cluster 95)
  • the machine learning analysis similar to the one performed in Forslund et al.