Marcus Stoiber

I would suggest outputting all context modified bases from megalodon. Calls in new contexts cannot be generated without rerunning megalodon. From the all context calls output, motif specific calls can...

I would suggest that this is a custom processing request which I am not sure we can support without a larger use case. You can see the core logic to...

Yes. 6mA is the highest priority all-context model. We do not have a firm time table for this model as it still involves a bit of research, but will release...

How are you computing this read quality for the two runs? Megalodon read qualities are derived from the guppy server and thus should match guppy exactly.

Megalodon does not currently support demultiplexing. There is no time frame for this support at the moment.

Yes. This would certainly be one workaround. Another workaround (without the overhead of running the basecalling twice) would be to run Megalodon with only per-read outputs including basecalls (e.g. `--outputs...

Thinking about this a bit further, it seems a solution to this might be to add barcode assignment to applicable outputs. New issues can be raised as further barcoding outputs...

Yes, the proposal would allow the `mod_mappings` and `mod_basecalls` outputs (with `Mm` and `Ml` tags) to be separated by barcode. It might make sense to add a barcode field to...

We do not have an expected date of release for all-context methylation models at this time. We do have good evidence internally that R10.4 kit 12 (aka E8.1 motor) does...

This is being worked on and will be included in the next release.