-
### What happened?
[reporter's note: IIRC, exit code 137 indicates that the "container" in which the worker JVM was executing exceeded memory limits. It seems likely that whole stage codegen has eith…
-
I'm trying to download annovar database using the following command, but the download is not working. Could you help me troubleshoot?
```
$ perl annotate_variation.pl -buildver hg38 -downdb -webfr…
-
Thanks and congratulations on this great tool.
Given that gnomAD predominantly represents certain populations, how could we adapt GeniE to incorporate allele frequencies from our custom dataset, wh…
-
Hi,
I noticed that a `allele` json field is reported for matched variants in custom annotation with the `exact` method. However it is not reported when the `overlap` method is used instead. Please se…
-
I get the same error when parsing a vcf annotated with dbNSFP ( by snpSift )
I ran the following
```python
reader = vcf.Reader(open("file.vcf"))
for line in reader:
print(line)
…
dridk updated
4 years ago
-
Research use any populations other than Finnish/Ashkenazi Jewish - which means we can't use our gnomAD cohort genotype filters and get the speed boost.
We could make our gnomad AF division based on A…
-
Can I use slivar make-gnotate to get the gnomAD (v3.1) FILTER field e.g. "##FILTER=
-
`slivar_static make-gnotate *.bgz`
Seems to only have processed chr10?
```
> slivar version: 0.1.11 5d6a5990fc06b52cbb1930806d03f786cf27d267
@["make-gnotate", "gnomad.genomes.v3.1.sites.chr10.…
-
Hi, Your download tool only specifies one version of gnomad and PON reference files. The gnomad you supply must be hg19 because it is labeled as version r2.1.1, which is hg19. The PON isn't labeled ei…
-
I noticed that I was not getting any indels back when running the current docker against my own guides, so I ran it against the test guides and still did not get any indels. This included indels that…