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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
10 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
11 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…
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### Description of the bug
I am going to use pgsc_calc in a study which will use HPC resources. This requires Dockerizing the pipeline I'm using for the study. The pipeline includes a bunch of pre- a…
Fiwx updated
8 months ago
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### Description of the bug
scratch and project folders don't exist in the container.
### Command used and terminal output
```console
$ nextflow run pgscatalog/pgsc_calc -profile test,singularity
…
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Dear Florian,
I have made a lot of progress thanks to your helpful responses to my questions in the past few weeks and I highly appreciate that. I am trying to calculate the genetic correlation betw…
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### Description of the bug
Hi. I hope to get some help or suggestions. Have no experience and only installed Ubuntu for trying to run and use pgsc_calc for personal use on Ubuntu 22.04.2 that I insta…
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Hi @zhilizheng
So I did sensitivity analyses on my polygenic scores with pTDT and a couple of key ones do not show overtransmission among probands. Any idea why this could happen? Thanks.
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Hi,
[PRSice.log](https://github.com/choishingwan/PRSice/files/12062202/PRSice.log)
I ran PRSice but the barplot show zero p-values and grey bars, and no significant results were generated. Attached…
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### Description of the bug
My .pvar file is zipped so it has the suffix .zst so it seems the pipeline cannot find it. Do I need to run the pipeline on uncompressed PLINK2 files?
### Command used and…