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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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Hi GSC's developers,
I've been testing GSC for variant compression and noticed a couple of issues regarding multi-threading behavior and compression performance:
**Multi-threading Issue:**
It s…
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Hi,
Do you think it's possible to use the existing `topr` functions to create a colocalization plot? Specifically, multiple locuszoom plots are superimposed on each other with a shared gene track at…
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Hi, I was wondering if there's any way to obtain the `l2.M5_50` files by chromosome, or if you could provide the MAF column on which you based these analysis so I can do it myself!
I do not see tha…
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It is time to discuss the genome-wide significant p-value threshold for GWAS and molQTL studies. We started this discussion with @Daniel-Considine and @d0choa.
## Background
For now, we use the …
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Dear LCV developers,
We ran three LCV tests to study a relationship between two UKBB traits - varicose (VV, three sets of GWAS data, rg = 0.98 - 1.00) and ostearthritis (OA) - and obtained controve…
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Hi,
I am facing an issue with the burden test where the genotype goes to -nan or nan:
```
-reading in genotypes, computing gene-based tests and building masks...ERROR: Throw location unkno…
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Current API endpoint:
```
http://pheweb.sph.umich.edu:5000/api/variant/10:114758349-C-T
```
If the T2D portal is going to hit this for their UKBB PheWAS queries, we would need to provide a ver…
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Hello,
We're randomly receiving the following error in our HPC environment when Regenie is executed by our researchers:
Script output:
/var/spool/slurmd/job484610/slurm_script: line 25: 21475 S…
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I am trying to run SAIGE-GWAS Gene and Region Based Association Tests, and I am trying to figure out how to obtain legitimate groupfiles to use for the analysis. I know there is an R-script available,…