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Dear @iiSeymour
I am currently experimenting with the new Bonito basecaller (in comparison with the Guppy basecaller).
Recently, we have generated a big dataset of bacterial ONT sequences of a…
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## Check Documentation
I have checked the following places for your error:
- [x] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting)
- [x] [nf-core/scrnaseq pipeline docu…
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Hello Everyone,
First, thanks a lot for your efforts to make viral-Track available for the community.
I am running Viral_Track_scanning.R as follow:
Rscript Viral_Track_scanning.R parameters.txt ta…
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Hi,
As, I am trying to use CIRCexplorer2 and using this command
tophat2 --library-type fr-unstranded -o tophat_fusion -p 48 --fusion-search --keep-fasta-order --bowtie1 --no-coverage-search /bow_t…
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### Description of the bug
Hi, the following bug was discussed on the Slack #rnaseq channel (4th March) and a workaround was identified.
When trying to use salmon pseudo-mapping quantification, an e…
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I am running mutation calling and HLA with optitype (separatily), and I'm encountering the same error involving bgzf
Error: unhandled exception: invalid bgzf file [ValueError]
[hla.config.yaml.txt…
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Hello, I've been experiencing an issue with the "Align" function. After WGSE attempts to generate the two fastq files, I usually get an error saying that there's an issue with my original BAM file.
…
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Hi,
I'm trying to run kallisto, using a precomputed index, but it keeps failing.
```
nextflow run nf-core/scrnaseq --reads 'fastq/*_R{1,2}_001.fastq.gz' \
--aligner "kallisto" \
--kalli…
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Hello!
I'm using vg map to align some sequences to a graph and I would like to obtain a CIGAR string. From what I could find, I thought that the CS:Z tag encodes a CIGAR string, but I'm not sure how …
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### Arriba 2.1.0
Fast and accurate gene fusion detection from RNA-Seq data
https://github.com/suhrig/arriba
https://arriba.readthedocs.io/en/latest/quickstart/#manual-installation
License: MIT/Exp…