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hi,
I got "ValueError: There should be no nans in the postprocessed annotation. But there are 9886" when running final sldp. But I checked my RV.gz file, there are no nans. I wonder what's the prob…
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**Description**
Hello @rpetit3 ,
We are currently using the `shigeifinder` wf in the bactopia tools, but it stucks for many hours. Please find the logs below.
> (base) gilmansiu3@gilmansiu3-Z49…
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## 1. Bug description
I noticed a couple things when trying to munge the sumstats from the Posthuma 2021 AD GWAS provided here:
https://ctg.cncr.nl/software/summary_statistics/
### Expected beh…
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## 1. Bug description
I've applied these fixes to `MungeSumstats` v1.3.20
* AF (allele frequency) was accidentally
being assigned as INFO column in VCFs where the INFO rows started with "AF".…
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I would be keen to try out and eventually adapt the code for use elsewhere.
Cheers.
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## 1. Bug description
The tool fails to perform the munging over chr:bp input data
### Console output
```
******::NOTE::******
- Formatted results will be saved to `tempdir()` by defaul…
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Dear voichek. I have same issue with a below link. I downloaded v.0.2 version and tried again. but It's not solution for me. https://githubmemory.com/repo/voichek/kmersGWAS/issues/92
Hear the mess…
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Hi
I use delly on my long read data but I run the command line below. It does not recognize "lr".
assane@gwas:~/delly$ delly lr -y ont -g /home/assane/hecaton/ref/TAIR10.fa /media/assane/DD-2To/…
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## 1. Bug description
Did not have a change to read #111, but it may well be related to it
### Console output
```
******::NOTE::******
- Formatted results will be saved to `tempdir()` by …
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Hi all,
Thanks again for the fantastic tool. In performing liftover from GRCh37 -> GRCh38 I noticed a few strange things happening.
The following SNP is in my raw data
```
X 50858748 A G X:508…