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14 esm hugging face #15

Merged
merged 18 commits into from
Dec 23, 2022
Merged

14 esm hugging face #15

merged 18 commits into from
Dec 23, 2022

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tijeco
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@tijeco tijeco commented Dec 23, 2022

So I've done what I set out to do and then some..

Primarily:

  • generalized approach for loading and using both esm and prot_bert models
  • complete overhaul of notebook organization and library structure
  • now have scratch notebooks directory to play around in
  • import berteome as berteome is back in play baby!
  • nice class to generate prediction dataframe for all residues in a given sequence

@tijeco
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tijeco commented Dec 23, 2022

There are still quite a bit of overhaul things to do here. But, esm being distributed through hugging face is really huge and really cleans up the way that we can approach this!

For now, certainly seems like we have solved the main problem at hand.

@tijeco tijeco linked an issue Dec 23, 2022 that may be closed by this pull request
@tijeco tijeco merged commit eb9c1df into dev Dec 23, 2022
@tijeco tijeco deleted the 14-esm-hugging-face branch December 23, 2022 22:15
@tijeco tijeco mentioned this pull request Dec 24, 2022
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ESM hugging face
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