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There was [a question at the R/qtl2 google group](https://groups.google.com/g/rqtl2-disc/c/rdnlH98U6HU/m/0L817UGIAQAJ) about getting an SE on the estimated heritability from `est_herit()`.
Could us…
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Enhancement: Gary suggested adding an option to est_herit() that would allow for heritability estimates on each chromosome. I've been doing it with 'regress' by putting all 20 per-chromosome kinship m…
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Dear all,
I wanted to use BGLR to estimate the genome-wide variance explained of a trait by SNPs and DNA methylation . A colleague and I noticed that BGLR estimates substantial SNP heritability or …
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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, esteemed LDSC team,
I would like to know how to calculate partitioned genetic correlations. Prior to this, I have already completed the analysis of partitioned heritability，This will be of gr…
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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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# 2024 phenotype data
## 2024 phenotype data
Scatter plot of Alkaloids vs Delta CT (both normalized and OG data).
. We have about 500k SNPs directed genotyped SNP (~500k remain after merging), heritability r…
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Hello,
Just wanted to notify you that some tutorial download links are broken: https://github.com/bulik/ldsc/wiki/Heritability-and-Genetic-Correlation
These two:
wget www.med.unc.edu/pgc/files/…
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Dear everyone,
When I run the partitioned heritability, there have some errors:
xiangbos-MacBook-Pro:ldsc_mod xiangbo$ python ldsc.py --h2 sleep.sumstats.gz --w-ld-chr /Users/xiangbo/mtag/mtag/lds…