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Hello, I would like to study the genetic correlations of several diseases in East Asians, and below is the log file. I am wondering why so many SNPs are being excluded due to valid alleles QC. Could y…
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I wonder whether it is possible to use LDSC for X chromosome analyses - specifically to evaluate polygenicity, heritability and genetic correlation between traits.
I am unable to find any examples…
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Hi,
I have two sumstats, before doing genetic correlation, I have intersected the SNPs of the two data and generated the sumstats.gz files. When I do rg, it reports this error:
./ldsc.py \
--ref-…
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I wanted to estimate genetic correlation between two binary trait, The summary statistics beta and se are based logistic regression. Their Zscores range are [-8.881,7.614], and [-4.398,5.029]. When I…
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I have GWAS for two traits, both are based on the same sample (N=2000). The h2 of one of the trait is very small (0.0325), and the h2 of another one is larger than 1 (1.1843).
I wonder if it is due t…
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Hello,
I recieved this error message.
How can I solve this problem?
*********************************************************************
* LD Score Regression (LDSC)
* Version 1.0.1
* (C) 201…
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Hi!
I am currently using the --ref-ld-chr-cts option to perform S-LDSC analysis, and I have a few questions:
1. The output of my analysis only includes the columns Name, Coefficient, Coefficient_s…
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Hi,
I am running LDSR correlation between two traits (t1d and w6), and when I run the analysis considering an intercept I get the following error:FloatingPointError: invalid value encountered in s…
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Hello,
I am running a cell type specific analysis with a modified baseline model where I added an extra category, it works when I use the summary statistics for one trait but crashes for other trai…