Intro

POPout comes with example data for multiple toy traits. Inside of the data directory you should see:

    toy_bmi.pop    <--- toy bmi data
    toy_bp.pop     <--- toy blood pressure data
    toy_height.pop <--- toy height data
    toy_hg.pop     <--- toy handgrip data
    toy_vitD.pop   <--- toy vitaminD data
    TEST.pheno     <--- Example Phenotype data
    TEST.prs       <--- Example PRS data

The toy data files are in "POP format" which is column or comma separated data where the first column is the phenotype and the second column is the PRS values. For more information on POP format and help getting your own data into POP format please see Guide: Input Data.

Python3

To run the demo on all the toy traits using Python, please type:

./POPout.py -o test data/toy_bp.pop data/toy_vitD.pop data/toy_hg.pop data/toy_bmi.pop data/toy_height.pop

This will create three output files:

    test-result.txt    <--- POPout Results 
    test-dists.pdf     <--- Figure For POPout distributions 
    test-effects.pdf   <--- Figure showing POPout Effect Sizes

Please continue to the next page for interpretation of these results.

R

Alternatively, POPout can be run on a single POP-file using the following R script, which will print directly to the terminal:

Rscript --vanilla POPout.R data/toy_bp.pop > test_result.txt