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Hey Brent,
I've been testing this out recently and I really love how fast it adds the annotations. I have a particular use case, and it may be something you don't want to support, but I thought I wou…
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This one is quite complex to explain, so i will start with an example
This is in my header
CADD,Number=1
CADD_SCALED,Number=A
When I have a multiallelic variant let say:
1 208063100 rs5780411 G…
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Hello, I have broken down the human CADD scores file into individual chromosomes and included all the resulting 24 files in the config file to speed up the annotation process, but it doesn't seem to b…
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### Description of feature
Some of the annotation programs used in the pipeline only generate vcf outputs. It would be good to make changes to those modules so that they can also generate compressed …
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We haven't looked at the annotation pipeline going into gene for a long time and it would be worth revisiting. For example, we are using vt to normalize and decompose, but we can likely achieve the sa…
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I have an upstream process that produces a VCF that is
1. Not sorted
2. Missing FILTER: PASS
3. uncompressed
## Scenario:
I need to run Picard:FixVcfHeader as a prerequisite to Picard:Sor…
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Hi,
I was wondering if it's possible to annotate both ends of a BND/TRA structural variant with vcfanno? From what I can see, it seems to annotate only one of the ends, but not the second.
For …
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The Homebrew Science formula for vcfanno has 11 resource blocks, which need to be updated each time there is a new release. In the absence of Go vendoring, this is the only way we can ensure reproduci…
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Hello,
I wanted to ask if there is a way with vcfanno to annotate a variant with its proximity to a certain feature. Specifically, I would like to know if a variant is close to the intron/exon bounda…
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Hello! I've discovered an error in a somewhat specific usecase. Here is the error:
```
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA12889 NA12890 NA12877
panic: runtime…