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Dear developers,
This tools looks super interesting! I wonder if you have tried it coupled with Read Until functionality for cDNA or other "short" long reads (e.g. 1-2kbp).
If not, do you think …
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Hi, I ran PASA with singularity to perform transcripts assembly and annotation update. The alignment assembly step ran successfully, but the update step ran with error, here are the error information:…
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- [ ] check the runinfo to make sure the sample can be combined (i.e. same pairedness, insert size, read length)
- [ ] make sure we don't process the same file twice
- [ ] concatenate output file…
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Hello, everyone
I used the PASA (v2.5.3) pipeline to update the annotations from EVM with the following command: `/vol2/YL_group/YL/software/PASApipeline-master/Launch_PASA_pipeline.pl -c alignAssemb…
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Chemistry(darkreaction) determined in oligoR1: darkreaction
Chemistry(darkreaction) determined in oligoR2: darkreaction
Chemistry(darkreaction) determined in cDNAR1 : darkreaction
2024-11-07 00:0…
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Apparently, dorado v0.4 and newer versions have added a chimeric read splitting feature. However, it does not reach 100% sensitivity. I was wondering how is exactly the read splitting working. Assumin…
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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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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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Hello there,
I hope you're having an awesome day, and that all is going well on our side. I just wanted to reach out to you because I ran into an issue when installing/building cDNA_cupcake using t…
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Hi,
I tried to upload a rice cDNA FASTA file for reference, but failed with an error code below:
"Starting job.
Error: ErrorException: rename(/rnadetector/ws/storage/app/public/jobs/6//rnadete…