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The PGS Catalog now provides "harmonized" scoring files in both GRCh37 and GRCh38 formats: https://www.pgscatalog.org/downloads/. These files are located within the "Harmonized" folder on the PGS Cata…
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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…
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### Description of the bug
It looks like the workflow is trying to access the "NO_FILE" placeholder as if it were a real file, leading to a NoSuchFileException, and then:
> ERROR: No results repor…
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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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### Description of the bug
I'm not sure how to interpret this error. I'm running a single score on a single-sample, non-imputed WGS VCF file.
### Command used and terminal output
```console
Samples…
Fiwx updated
11 months ago
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### Description of the bug
Hello,
My analysis without _--run_ancestry_ works, but I when include "_--run_ancestry_ pgsc_calc.tar.zst" it fails.
Download of the pgsc_calc.tar.zst folder went wit…
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### Description of the bug
Input bed file is not found, but exists. Command, samplesheet, output, .nextflow.log, and .command.run are provided below.
### Command used and terminal output
```console…
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Hello, I am using PRsice with base data from PGScatalog. Nonetheless, I should use a --pvalue but it is not used in PGS catalog.
The following are the first lines of a PGSCatalog file for ADHD diseas…
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Hi team,
When testing v1.3.0 offline, the pipeline throws an error for both test data and my own data:
```{bash}
No such file: https://gitlab.ebi.ac.uk/nebfield/test-datasets/-/raw/master/pgsc_ca…
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### Description of the bug
I was following the [tutorial](https://pgsc-calc.readthedocs.io/en/latest/getting-started.html) and I got the same error when running both on Mac M2 and Linux, Conda and …