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_This is a heads-up for ghc-9.10 (current Nightly is still on ghc-9.8)_
ghc-9.10.1 ([changelog](http://hackage.haskell.org/package/ghc-9.10.1/changelog)) is out of bounds for:
- [ ] Rattus-0.5.1.1…
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Hi there,
I was testing LiftOff and LiftOn to see which one is "best" for genome annotation. I was looking at some RefSeq genomes, lifting the brown-headed cowbird and red-winged blackbird onto the…
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Hello,
Can you fix your code so that the exon colors appear in a real rainbow palette.
The colors for the exons are ordered in this way right now: Ex1, Ex10, Ex11 .... Ex2, Ex20...., when it sho…
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SNAP does a great job but I've had some issues using it lately..
I found that the generated ZFF file does not contain Einit and Eterm, which means that the predicted genes only have exon entries and …
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Hello,
I have converted my fasta file and paired end reads to make a GTF file using augustus. However, when I am trying to index the fasta file (the gtf file is needed) I recieve an error. This error…
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Write tests for variant_validator_api_functions.py using PyTest.
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Hello,
I recently started to use ASpli to quantify the alternative splicing levels of my gene. My gene has 3 isoforms which only differ from each other by one exon.
- The first one has all exons…
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Hi there,
Thanks for the wonderful new tools! I have a question about the output of the script [new_annotator_with_skipping.py](https://github.com/landau-lab/ONT-sc-splice/blob/main/junction_annota…
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Right now the Excel file could provide more detailed information that is scattered throughout different files. This information should be unified in the produced .XLS file.
Bonus points: can we als…
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can Whippet detect exon skip events?
it seems that CE (core exon) doesn't contain exon skip.
Thank you!