I am using the PRSice software for evaluating polygenic risk scores for my psych-chip data. After running the software, I got polygenic risk scores for each subject with SZ GWAS base data.
I found that almost all the polygenic scores for my subject were negative values. For example, -0.000972588 -0.000166018 -0.000792577 -0.00120931 -0.00104668, etc.
I don't understand what negative polygenic risk scores mean. Is is fine for me to get negative values? Or, does it seem that there were some program errors?
Please advise me. Thanks!