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The way start positions are calculated causes issues when alleles span the boundaries of exons and the coding sequence itself.
For exon boundaries:
The error stems from `FuncotatorUtils::getStar…
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Compared to the other variant types, SNP/indel variant calling is extremely slow. Is there a reason for this bottleneck?
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Initial group info you provided:
-----------------
| Name | Department/Program | Expertise/Interests |GitHub ID |
| ------------- | ------------- | ------------- | ------------- |
| Samantha Sch…
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Hi,
I noticed going through previous issues that people were having issues with -f haploid for the popgenWindows.py and you provided support (--haploid sample0,sample1,sample2 option) so that this …
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We want to see how easy it is to put a date on each evidence available on the Platform. The field that currently encodes this information is `publicationYear` so as per Cote's request, she wanted to k…
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Check out [this sample user guide](https://github.com/uio-cees/hpc/wiki/Using-PBHoney) on how to use different stages of PBHoney.
Depends on #3 & #4
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Hi
First of all, thanks for developing TRTools! I have a question regarding imputed STR input files.
I have a Beagle (v5.4) imputed VCF file that looks like below:
>##fileformat=VCFv4.2
##FI…
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From annotations in VEP 105, I'm seeing a flurry of warning messages
warning: unknown impact "splice_polypyrimidine_tract"
warning: unknown impact "splice_donor_region"
e.g.
```warning: unk…
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We need to review what https://nf-co.re/sarek can do to determine:
- if it could be used as is
- if it could be used with modifications
- if we'd rather extract and replicate some functionality h…
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[tasklist]
- [x] Early version of code into final_version.py on main branch
- [x] Pull request this into develop branch as a proof of concept.
- [x] HISTORY_CHANNEL: Open new Pull Request from d…