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bulik / ldsc

LD Score Regression (LDSC)
GNU General Public License v3.0
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Low polygenicity signal #265

Open lauraand1705 opened 3 years ago

lauraand1705 commented 3 years ago

Hi, I am using the ldsc.py with the h2 option to estimate heritability on case-control summary statistics. It seems I have almost no polygenicity signal. Can you help me with interpreting this? I have reformed the sumstats with munge_sumstats and I use the --merge-alleles with w_hm3.snplist.bz2 I have over 1,000,000 SNPs after reformatting and I get no error messages. I get: Lambda GC: 1.071 Mean Chi^2: 1.0694 Intercept: 1.0555 (0.0075) Ratio: 0.7986 (0.1077) Thank you for your help. Best regards, Laura.

anbai106 commented 3 years ago

Did you solve this issue?

lauraand1705 commented 3 years ago

No, unfortunately not.