mglev1n
commented
8 months ago See https://github.com/mglev1n/ldscr/issues/8 - the genetic correlation can't be estimated since it appears one of the traits has negative heritability. This may mean that you're using small/underpowered GWAS summary statistics, or are studying traits with limited SNP heritability.
xuanhua612
I am new, first time using the LDCSR ,encounter a problem, the "S_Stand"not found, how to solve this problem? details: |==================================================| ℹ No sample prevalence data provided. Estimating heritabilities on the observed scale. ✔ Using EUR reference from Pan-UKB [16ms] ✔ Reading LD Scores [154ms]
✔ Reading weights [152ms]
✔ Reading M [32ms]
✔ Reading summary statistics for '1' from dataframe [19ms] ℹ 964257/5586270 SNPs remain after merging '1' with LD-score files ℹ Removed 0 SNPs with Chi^2 > 80 from '1'; 964257 SNPs remain ✔ Merging '1' with LD-score files [3.7s] ✔ Reading summary statistics for '2' from dataframe [14ms] ℹ 1083058/11284768 SNPs remain after merging '2' with LD-score files ℹ Removed 291 SNPs with Chi^2 > 80 from '2'; 1082767 SNPs remain ✔ Merging '2' with LD-score files [6.4s] ✔ Reading summary statistics [10.3s] ✔ Estimating heritability for '' [124ms] ✔ Estimating genetic covariance for for '' and '' [1.5s] ! Your genetic covariance matrix includes traits estimated to have a negative heritability. ✖ Estimating heritability for '' [541ms] Error occurred for file: 5 Error message: object 'S_Stand' not found