New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Question regarding perplexity values #6

Open

chaitjo opened this issue Sep 30, 2024 · 0 comments

chaitjo commented Sep 30, 2024

In the paper associated with RDesign, perplexity values are not reported and claimed to be an unsuitable metric for RNA design (Appendix E.3).

However, in the code, we can see that perplexity is computed and the training logs suggest very unusual perplexity values for the released model: https://github.com/A4Bio/RDesign/blob/master/checkpoints/log.log#L626

Final perplexity:

Train: 1.0627
Validation: 22.1759 (suggests overfitting?)
Test: 3.6372 (different from what's reported in the paper?)

What is the reason that the model produces perplexity values at very different ranges here?

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment