secondary structure dictionary

[jcdelpiano]

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.

[rmrao]

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

[thomas-a-neil]

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

[jcdelpiano]

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!