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### Description of the bug
Hi,
I just get an error after exectuing a test command:
```
ERROR ~ Error executing process > 'PGSCATALOG_PGSCALC:PGSCALC:REPORT:SCORE_REPORT (cineca)'
Caused by:…
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### Description of the bug
```
ERROR ~ Error executing process > 'PGSCATALOG_PGSCCALC:PGSCCALC:ANCESTRY_PROJECT:INTERSECT_VARIANTS (ukb chromosome XY)'
Caused by:
Process `PGSCATALOG_PGSCCALC:PG…
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I have read your paper "Making the Most of Clumping and Thresholding for Polygenic Scores". It is a very interesting and useful paper!
I have an inquiry about the clumping option.
In your paper…
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### Description of the bug
Apologies for rapid-fire bug reports. Trying to churn this analysis out before I get too busy to complete it.
The `--run_ancestry` function appears to not work on my s…
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### Description of the bug
When running `pgsc_calc` on a samplesheet with multiple sampleset, I get the error: `2 missing chromosomes detected! Maximum is 1. Check your samplesheet.`. Splitting the f…
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Dear Florian,
Thank you so much for your great software.
I am trying to compute polygenic scores for one phenotype in a sample of around 1600 participants from my lab. I am using LDpred2-auto.
…
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Hi pgsc_calc team!
I had recently started a discussion about using pgsc_calc within cloud VM environments that have limited permissions built in (Terra, All of Us). Since then, I have just tried to…
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Hello,
I am currently following a PRS (Polygenic Risk Score) calculation tutorial, and I have encountered a situation where:
a) I successfully generated the best PRS when considering the entir…
hxckk updated
9 months ago
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@marchoeppner @ghemmrich @lwienbrandt @eikematthias
My vcf is in hg38, could execute with qref from eagleimp website which is in hg19 but wonder if there is a qref in hg38 because I don't know if th…
h171e updated
10 months ago
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Hi Florian,
I would like to incorporate the new inference functionality in my calculations. I could not but notice that you used slightly different parameters in your example than the ones you reco…