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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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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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Hi, I’m trying to calculate heritability of human disease from our GWAS data (using pre-computed LD Scores). 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…
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Hi there, I have calculated partitioned heritability by functional category ad I have 2 questions please:
1) In Finucane, Bulik-Sullivan et al, it explains why each annotation was also extended by 50…
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Hi,
is there difference between '--w-ld-chr' and '--ref-ld-chr'? As the inputs of these two arguments in the example code are same (eur_w_ld_chr), I also pass ld score of reference to the '--w-ld-chr…
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Hi,
When I did the prtitioned heritability with 1000G_Phase3_baselineLD_v2.2_ldscores.tgz, the Prop._h2 was negative and it was very significant. Is this a bug?
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Allow extension of trios to at least grandparents to observe heritability
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# Heritability (1): How 'genetic' is a trait? | Arslan Zaidi
One of the reasons I’ve come to write about this is because recently I’ve been asked a lot about “how genetic is this trait or that trait?…