malton-ont

Just to confirm - you're still seeing `CUDA error: an illegal memory access was encountered` in 0.8.0? Or some other error?

Closing due to lack of response. We believe this issue to be resolved - if you continue to see this in dorado 1.0.0 or higher after following the instructions above,...

Hi @kamaloxfordpathology, Dorado makes no distinction regarding the source of bases in the sequence. You may get better answers on the Nanopore community forums if there are bioinformatics methods to...

Hi @arslan9732, Thanks for raising this issue. It appears that parameter is currently not being applied anywhere. We'll look into this and try to get a fix in a future...

Hi @jbd, Thanks for the info - this certainly looks like a worthwhile change for users who take more active control over their CPU resources. We'll look into it for...

Hi @Pombeboy, What do you mean by "showed very high percentage of A being called as modified 6mA"? Does this simply include all bases marked in the MM/ML tags, or...

> The `--modified-bases-threshold` in Dorado ([@malton-ont](https://github.com/malton-ont) correct me if I'm wrong) only elides the confidently canonical calls as a space-saving optimization, it will not remove low confidence modified calls. I'm...

Thanks @ArtRand, that's a nice explanation! So I guess the advice to users here is "leave the dorado threshold alone if you're planning to filter in modkit".

Hi @ohickl, Thank you for reporting this. I've been able to reproduce this locally, and the root cause of the issue has been identified. We'll work on getting a fix...

You can also demux the files directly inline with basecalling by specifying an output directory using the `-o` argument: ``` dorado basecaller hac pod5 --kit-name -o ``` This will generate...