Shian Su

This is something I've actually really wanted to do but never got around to working out how. I do agree it'd be immensely useful, but I'd probably have to tinker...

Related issue: https://github.com/ramnathv/htmlwidgets/issues/296 It sounds like a problem with htmlwidgets not cleaning up properly when working directories are shifted around (by the knitting process?). We could add a check for...

Having a quick look through probability.txt, there are only a few with prevalence = 1. These regions have average methylation probability > 0.5, so the likely situation is that there...

Another +1, also for the purpose of Nextflow diagrams: https://nf-co.re/docs/guidelines/graphic_design/workflow_diagrams

Hello, very sorry for the late reply. I am actually not sure what is causing this, NanoMethViz should only be visualising one of the methylation codes, either "m" (default) or...

If it's not too big, could you use `saveRDS()` to save the `example_query` data and upload it here along with a data frame of the `sample` and `group` columns of...

I think you should be able to set `options("NanoMethViz.site_filter" = 5L)` before you run any plotting. This is an issue with ModBAM calling methylation along the reads rather than the...

Could you copy the first few lines of the TSV produced by Megalodon? It may be that they changed the format since I implemented the import, things tend to move...

Could you try installing the developmental version of NanoMethViz using `BiocManager::install("shians/NanoMethViz")` and trying again?

I think the plot is very squished and it's hard to say exactly what is happening. Could you maybe plot this on a larger fig.height and fig.width or a larger...