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# File last updated 2020/05/07
# Contact Josh Weinstock (jweinstk@umich.edu) or Matt Zawistowski (mattz@umich.edu) with questions.
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## Directory structure
We have the following directories:

1. biovu_comorbidity - This directory contains GWAS summary statistics for the comorbidity analysis in BioVU data. Files named "LAB.kitchen_sink.assoc.linear" are plink output files for GWAS controlling for various comorbidities; files named "LAB.resid.assoc.linear" are plink output files from GWAS without controlling for comorbidities.
2. biovu_summary_measures - This directory contains GWAS summary statsistics for all analyzed labs in BioVU. There are four plink output files for each lab, containing the GWAS results for the different summary measures of the labs (first/max/median/mean).
3. meta_analysis - This directory contains METAL output files for the GWAS meta-analysis of MGI and BioVU lab data (mean lab value used as the phenotype). These results are graphically displayed in the interactive pheweb browser, http://pheweb.sph.umich.edu/mgi-biovu-labs
4. mgi_comorbidity - This directory contains GWAS summary statistics for for the comorbidity analysis in MGI. The output files are from the epacts software.
5. mgi_summary_measures - This directory contains GWAS summary statistics for all analyzed labs in MGI. There are four epacts output files for each lab, containing the GWAS results for the different summary measures of the labs (first/max/median/mean).