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Newer Nanopore FastQ files (generated by Dorado?) seem to have the basecalling model information built into the FastQ header. We could try to parse this into the basecalling model format used by medak…
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Hello,
Happy new year and I hope you are well!
I was trying to run MetONTiime on my university's HPC with Singularity, on 44 samples (using SILVA 138 database for 16S rRNA). Everything ran well …
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Also, this may be out-of-scope until after a stable release, but a bespoke implementation of BugSeq-V2 seems worth investigating given its performance in that preprint.
_Originally posted by @gregm…
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Hi,
I am facing the following error while running the code -
```
Command line: ./IsoQuant/isoquant.py --reference Homo_sapiens.GRCh38.dna.primary_assembly.fa.gz --genedb Homo_sapiens.GRCh38.1…
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Hi,
I am seeing a much larger use of system RAM when using the v5.0.0 models with dorado 0.7.1
I have a PC with i7 13700K, 64GB of RAM and an RTX4090, as per the recommended specs for the P2 Solo…
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Hello everyone!
I am currently using samtools merge with the Version 1.11 on bam files generated by Nanopore basecalling. These bam files also include MM and ML Tags. Is it a known issue, that samto…
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Hello,
I am trying to align some Pacbio reads using this command, after having built the index:
` minialign -l ref_index.mai SubPacbio.fq > out.sam`
This returns
```
*** Error in `minia…
ghost updated
6 years ago
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Hello,
I am using m6ANet to detect m6A modifications in RNA and recently swapped over to the new nanopore RNA004 chemistry/kit. Because of this, my pipeline uses ONT's new basecaller, dorado, and I…
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Hello,
I am a bit confused by my isoquant results. I analyzed three BAM files with combined 109932 mappings (109931 primary, 1 supplementary). The log shows that all 109931 reads were classified as…
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I was checking some references (to cite dragonflye and the tools used within it) and think the Nanoq citation in the readme could be updated to
Steinig and Coin (2022). Nanoq: ultra-fast quality c…