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After getting dammit and all of the dependencies installed onto my Ubuntu machine, I tried following the annotation tutorial with the sample data, but the program failed after about four hours with t…
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### Description of the bug
JAFFAL pipeline crashes when singularity is used because singularity container has not minimap2 (at least)
### Command used and terminal output
```console
nextflow run nf…
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Dear all,
I am writing to kindly ask for FAST5 files for the cDNA runs (1D and 1D2) from all centres. They are provided for directRNA runs but it seems like that they are missing for cDNA reads:
…
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Hello,
Thank you for providing such a great tool!
For single exon gene/tx reconstructed by bambu, I was expecting them to be unstranded with the cDNA protocol (which is the case) but correctly s…
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Hi,
I am working on converting variants of different formats to gDNA variants I found some items gave different results:
commandline (version : 2.3.4)
```
hanh@cpuserver:/data/home$ transvar p…
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Hi,
I have been experiencing large numbers of unclassified reads esp. with the `pHMM` backend. With the `edlib` backend, I get more full-length transcripts, but still the no. of unclassified is stil…
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Hi everyone !
We are trying to use your API to convert cdna to genomic position. Overall, it's working pretty fine, but we had a problem with one conversion :
https://v3.mutalyzer.nl/positionconve…
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Dear Mr/Mrs,
I am trying to combine data from two PacBio runs: DNA (10kb) + cDNA (10kb), these regions overlap each other partially and I would like to phase them based on short-tandem repeats and …
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I met an error like this when I try to update me annotation using Launch_PASA_pipeline.pl, please help me fix it or give me some advice.
* [Fri Sep 15 01:56:05 2023] Running CMD: /home/MCY/App/PASApi…