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WGLab / DeepMod2

DNA 5mC methylation detection from Dorado or Guppy basecalled Oxford Nanopore reads
MIT License
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Can DeepMog2 run with 260bps models ? #20

Closed damienhinsinger closed 7 months ago

damienhinsinger commented 8 months ago

Hello, I have many data generated using R10.4 flowcells sampled at 4 kHz and sequenced at 260 bps (basecalled in SUP mode). I would like to know if I can use DeepMod2 to get methylation from these data ? Thanks in advance

umahsn commented 8 months ago

Hi,

Unfortunately, we did not have access to any 260bps datasets so we did not train any model for them, nor were we able to test our 400bps models on any 260bps datasets. I believe Dorado and Guppy have 260bps models.

Best, Umair