IGV shows Coverage not methylation values from BedMethyl

nanoporetech / modkit

A bioinformatics tool for working with modified bases

https://nanoporetech.com/

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IGV shows Coverage not methylation values from BedMethyl #275

Closed sahuno closed 1 month ago

sahuno commented 2 months ago

i want to see methylation values (column 11) not coverage (column 5, score) when i upload my bedMethyl file to IGV. how can i do that? i'm following the issue with IGV and it seems everything is working good. https://github.com/igvteam/igv/issues/1396

ArtRand commented 1 month ago

Hello @sahuno,

I apologize for the slow response, I've been OOO.

I'm using IGV 2.17.4 and if I name by file with the extension .bedmethyl then IGV will show me all of the data fields.

sahuno commented 1 month ago

thanks