churchlab / low-n-protein-engineering Goto Github PK

Hi,
could you please let me know how I can find some missing files that are not in your github files. for example "all_seqs_sark_synneigh_fphomologs_for_unirep_inference.txt" file is not exist.

Hello,
Would it be possible to set up a google colab as a way to access the method?

Thank you.

Hi, I'm trying to run the code in analysis/A003_policy_optimization/004_split_2_retrospective_perf_runs_for_main_text.ipynb but I appear to be missing this file data/s3/datasets/for_acquisition/all_seqs_sark_synneigh_fphomologs_for_unirep_inference.txt I can't find this path in the S3 bucket or see a way to recreate it - am i overlooking something or is it missing from the repository?

Hello, it seems that in FP and BLAC experiments, the ridge regression worked well in validation set. However, both in my hand and in examples from Ivan's re-implementation, the ridge regression sucessfully fits the training set but has bad performance in validation set. I guess this can be blamed for insufficient training of eUnirep. The problem is, if it deserves moving on to directed evolution with a overfit model?