Nima Mousavi

Hello, I just tried several different settings to replicate this error and was not able to do so. Does the error persist? Is it possible to share the VCF file...

Hi Nathan, I'm responding on behalf of Melissa, as she probably won't get a chance to do so. That would be great if you could add that feature and submit...

Hi Bonnie, Did we figure this out? I remember you mentioned it before but forgot if it was addressed or not.

O cool I remember now. If you have the bed file that created this issue can you add it here? That way I can reproduce the error and take it...

awesome, thanks! I'll check them out later.

Hello, This error occurs when the region around your locus doesn't contain too many reads. If you're creating bamlets from WGS data, I suggest increasing the size of the region...

Oh I understand now. Unfortunately, I can't think of an easy way for flagging these samples. Maybe a wrapper script that calls GangSTR for each sample, and handles error cases...

Please let me know if you have any other questions, I will close this issue for now but you can email me ([email protected]) or open another issue for other problems!...

Hi Claudia, It seems like htslib is not able to read the bam file (I think that's what's happening given the bgzf error). Can you please try opening the bam...

Hi Claudia, It seems like the file format is correct. I'm not sure what may be causing the error. Is it possible for you to share the bam file and...