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Hi
I was successfully able to run 2 PGS traits for my plink format target data (~20K EUR samples).
However when I try to run the same with ancestry adjustment, I am getting an error at the INTERS…
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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
```
ERROR ~ Error executing process > 'PGSCATALOG_PGSCCALC:PGSCCALC:ANCESTRY_PROJECT:INTERSECT_VARIANTS (ukb chromosome XY)'
Caused by:
Process `PGSCATALOG_PGSCCALC:PG…
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Hello
It was a pleasure to use PRScs. In the process of running PRScs, I used 1000 genomes from Europe, the GWAS summary statistics, the East Asian test data, and obtained a posterior SNP effect size…
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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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### Description of the bug
Hi! First of all, thanks for developing this tool :)
I am having some issues using it in Nextflow Tower. I am launching the execution in AWS Batch and I am having the foll…
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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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### 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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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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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.
…