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Published 20 hours ago • verified publisher icon songlab-cal

secondary structure dictionary

Open jcdelpiano opened this issue 4 years ago • 3 comments

Hello,

I'm training a model for secondary structure prediction using three classes, but im not sure about how you encode those classes in the data (ss3). Could you please help me with this?

Many thanks!

Javier.

jcdelpiano avatar May 20 '20 16:05 jcdelpiano

@nickbhat I believe you did the encoding of SS3 data - can you answer this?

rmrao avatar Jun 09 '20 23:06 rmrao

Hi Javier,

You can find the mapping from secondary structure index to class in the deprecated repo here https://github.com/songlab-cal/tape-neurips2019/blob/master/tape/data_utils/vocabs.py#L147. Is this what you were looking for?

Perhaps we should merge this vocabs file in from the deprecated tensorflow repo

thomas-a-neil avatar Jul 10 '20 20:07 thomas-a-neil

Hi,

yes, that's exactly what I was looking for! Thank you for the help!

I think it would be useful to merge the vocabs as you suggest, for future users :)

Thanks again!

jcdelpiano avatar Jul 10 '20 21:07 jcdelpiano