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PacificBiosciences / kineticsTools

Tools for detecting DNA modifications from single molecule, real-time sequencing data
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Detecting something different from 4mC, 5mC and 6mA #59

Closed weedcentipede closed 4 years ago

weedcentipede commented 6 years ago

Hi, I'm writing this issue to ask if kineticTools is capable to identify/assign identitiy to something different than 4mC, 5mC and 6mA.

In case of possible, how could be done? Thanks in advance, Luis Alfonso.

rhallPB commented 6 years ago

Not without training your own discriminator. While other modifications are detected, i.e. there is a signal, it's not possible to identify the specific signal of anything other than 4mC and 6mA.

weedcentipede commented 6 years ago

How can I train my own discriminator? Or there's training data for other data available?

rhallPB commented 6 years ago

This would require someone with a signal processing / machine learning background, and the sequencing of a large set of training data, with known validated modifications. i.e. this isn't a simple or inexpensive experiment.

weedcentipede commented 4 years ago

Thanks for the answer.