Marcus Stoiber

This is likely an issue with the megalodon and guppy interface. As megalodon is being deprecated I would recommend trying to use the latest Remora all-context model with Bonito. The...

The dna_r9.4.1_450bps_modbases_dam-dcm-cpg_hac.cfg model was an initial proof of concept model and is not recommended. The dna_r9.4.1_450bps_modbases_5mc_hac.cfg model is an improvement over this and is the best model for R9 data....

This is functionality that is quite difficult with the current megalodon/taiyaki framework. We are working on a major re-write of the data prep and will have this out in the...

It would be helpful if you could post a bit more detail on the nature of your training data. If your data is composed of 100% modified bases (i.e. all...

I see a couple of issues here. The first is that this limited context is not very likely to produce a robust model outside of the ~50 sites in this...

These scripts are not currently publicly available. We are working to improve the robustness of this workflow and release this code at some point in the future. We will be...

Nothing at this time. This is still a very high priority, but we do not have a model released at this time.

The k-mer models for RNA need to be used. These can be found in the kmer_models repository as noted in the README. The `reverse_signal` flag should also be set where...

@mzdravkov 1. Yes, this is likely to be resolved in the next release. 2. I do not have a concrete timeline for this release, but hope to have it out...

I'm not sure I understand this request. Are you looking for the basecalling models to be made available through remora? Or are you looking for specific modified base models? If...