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README
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README
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Herein lies the absolute truth for all things for the Polygenic Risk Score (PRS) project.
*** Directory structure ***
./README = This file
Common directory:
-----------------
The common directory contains the data, scripts and files that are common for all diseases in the PRS analysis pipeline.
./common/ = Directory containing common raw data, scripts and files for all diseases.
./common/raw_data/ = Directory containing the common raw data downloaded from various sources.
./common/scripts/ = Directory containing the common scripts in the PRS pipeline used for all diseases/phenotypes. * DO NOT RUN * these scripts from this directory. These scripts must be run from the specific disease/phenotype script directory.
Per-disease/phenotype directories:
----------------------------------
The per-disease/phenotype directories contain the data, scripts and files specific for the PRS analysis of that disease/phenotype.
./T2D/ = Directory for PRS for Type2 Diabetes
./asthma/ = Directory for PRS for Asthma
./CAD/ = Directory for PRS for Coronary artery disease
Each per-disease directory has the following sub-directories:
./<disease>/raw_data/ = Directory containing the raw data specific for the analysis of this disease.
./<disease>/derived_data/ = Directory containing the derived data (modified from raw data) specific for the analysis of this disease.
./<disease>/scripts/ = Directory containing the scripts specific for the analysis of this disease.
./<disease>/logs/ = Directory containing the logs for the analysis of this disease.
./<disease>/output/ = Directory containing the output for the analysis of this disease.
./<disease>/plots/ = Directory containing the plots for the analysis of this disease.
./<disease>/results/ = Directory containing the results for the analysis of this disease.