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Hello, I am new to PASA and I am calling PASA from the funannotate pipeline. After the initial annotation, the BUSCO score was 97.9%. I then ran the funannotate update command, which in turn calls PAS…
melop updated
3 years ago
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Hi, brianjohnhaas.
I found a small problem when using PASApipeline v2.5.2 (or PASApipeline v2.5.3) via singularity to update my genome annotation.
The log remained me that **fasta** and **pasa binar…
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**Assignee:** Ali Haider Bangash
The first step is to identify what data could be integrated through a knowledge graph and what is available. What did the other Hackathon teams accomplish? What is …
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Am interested in using DeepFRI in a new pipeline I'm writing, but am concerned (based upon the number and age of unaddressed Issues here) that DeepFRI is no longer supported.
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I have been looking into using the RNA-seq data but have some questions on the gene annotations for the V2-RNA-seq data that I get from running your GDC-prepare-function.
How do the 21022 genes tha…
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Should provide a link to methods of construction and/or cite to:
Köhler, S., Doelken, S. C., Ruef, B. J., Bauer, S., Washington, N., Westerfield, M., … Mungall, C. J. (2013). Construction and accessi…
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![Screenshot 2023-08-04 at 10 44 11](https://github.com/liampshaw/mobile-gene-regions/assets/6445761/c08c1a3f-d6ca-41c7-922e-0935d92a3dec)
`NZ_CP072825.1` has OXA-9 rather than OXA-48 in OXA-48-r…
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I'm dropping here a user question/request from the customer support ticket ([#372436](https://clinical-scilifelab.supportsystem.com/scp/tickets.php?id=51204)):
Pertaining to the issue of SVs an…
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I use my customized `.gtf` file to run 10x scRNA pipeline and everything is OK.
However, when it came to velocyte `run10x`, here is an error:
```
OSError: Genome annotation gtf file is not sorted…
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Hi,
I used your pipelines to build a custom annotation file, and found nan in the CNV output, Why did this happen?
Ampliconic_Summary.txt
GeneFamily CopyNumber(MAP=1) CopyNumber(XDG)
…