efficient-evolution

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ESM-2 implementation?

2

Any chance there will be an update to use ESM-2 models such as `facebook/esm2_t6_8M_UR50D`? This would make the code easier to use locally for people who have hardware constraints, and...

Amelie-Schreiber

Hi，Developer！ How to understand the function reconstruct_multi_models() and what it does to the model. Best, Jamie Note: amis.py ``` def reconstruct_multi_models( wt_seq, model_names=[ 'esm1b', 'esm1v1', 'esm1v2', 'esm1v3', 'esm1v4', 'esm1v5', ],...

ligeng-k

I have get the mutation value by pre-trained models, but I can't sure the dos_name, cutoff, k_cutoff in my dataset, what they means in a dataset ? and How to...

Lcollection

Hi，Developer！ How to use bin/predict_esm.py? Do I need to change seqs_abs, or under what circumstances do I need to modify seqs_abs? Best, Jamie **Note:** predict_esm.py ``` seqs_abs = { 'medi_vh':...

geng-lee

when the protein length is larger than 1022, the recommend output will be staggered by two digits

1

here is the output, and the number of residues output by the language model is reduced by two. F1037Y F1038S Y1039N S1040I N1041M I1042N M1043F N1044F F1045K F1046T K1047E T1048I...

liusfore

Colab notebook getting killed

2

Hey all, I tried to use the colab notebook to run the example snippet, but it's getting killed and showing a kill command `^C` in the output. I didn't kill...

ngreenwald

YML file broken?

1

Error in my conda env creation: LibMambaUnsatisfiableError: Encountered problems while solving: - nothing provides requested zlib ==1.2.13 h5eee18b_0 - nothing provides requested xz ==5.2.6 h5eee18b_0 - nothing provides requested typing_extensions...

humzaashraf1

Hello all, thank you for your wonderful work. I am just cruious that is it possible for me to mutate certain region such as CDRH3 only?

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