Previously generated xpore-dataprep files suitable for m6anet inference about m6anet HOT 2 CLOSED

hi @callumparr, thanks for trying out m6anet and sorry for the delay in my response

Currently the dataprep method that m6anet differs from xpore in terms of the features generated and therefore we are not able to use the eventalign.hdf5 generated from xpore. We are planning to integrate the preprocessing steps in the future so stay tune!

To answer your second question, the current release of m6anet, the probability score that it generates is not correlated with the proportion of modified reads a site has so it is not able to run differential analysis. The next release will have some quantification features and we might be able to do differential modification analysis but currently we are still validating the quantification results

For the third question, the guppy version that we use is v2.1.3 so it is rather old but in principle this should not affect the accuracy of the algorithm. This is because we are using the current intensity features as generated by nanopolish eventalign and so it does not depend on the base-calling accuracy (although this probably might affect nanopolish eventalign)

from m6anet.

hey @chrishendra93 thank you for the in-depth reply. It is very useful. Look forward to new releases of m6anet!

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