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Congrats for your paper! DeltaSplice looks very promising.
I was testing `pred_deltassu.py` using my own toy data and noticed that this script works well for any single nucleotide variant (SNV), b…
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Notes from meeting 24-11-27
* It would be useful to know what genes tend to be of lower coverage, and ideally have an overview of this on the panel overview page
How to approach
* Potentially start…
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Hi, it's great to have GenomicRanges in Python and really appreciated.
I've encountered a coordinate issue when loading a GENCODE gtf file with the `genomicranges.read_gtf()` function (I'm using v…
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**Copy and paste the exact command you tried to run**
```bash
flair collapse --query results/flair/correct/lung_all_corrected.bed --genome resources/reference.fa --reads /project/hfa_work/ENCODE/dat…
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Hello,
There is a well characterized CAG repeat in the ATXN3 gene (exon 10). The latest variant catalog does not have that. Could you please tell me whether it is advisable to add the entire exon (…
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## Describe the issue
Hi, I am using the rest api end point `overlap/id/:id` to retrieve features (gene -> transcript -> exon -> cds) that overlap with a transcript region. I cannot find version numb…
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Hi there, thanks for your helpful and convenient package on locuszoom plot！
I used the `gg_genetracks` function to create a gene position plot. However, when I attempted to save the plot with `ggsave…
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Hi,
Since UTR is a part of the exon feature in molecular biology, I attempted to extend the start coordinate of the first exon (for forward strand transcripts, 5’ -> 3’) or the end coordinate of the…
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I might have mentioned it before, but there is only a single node with the category `biolink:Exon`: a node with the name `Exon`. I think either the ETL-ing of whatever KP has exon info is borked, or s…
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Hi
I'm trying to replicate some splice junctions in my long-read Kinnex data. Out of a total of 115 splice junctions, I managed to replicate about 100 from quantification obtained via the isoseq/SQ…