SweetNet for other ML application about sweetnet HOT 2 OPEN

Hi,

thanks for your interest in our work!

In principle you can use our trained SweetNet model for your purpose but it may not lead to satisfying results as we only have supervised models stored (trained for a specific purpose). So I'd suggest trying it out.

The easiest way is to use the infrastructure in our glycowork package, for instance adapting the snippet on https://bojarlab.github.io/glycowork/examples.html#example4

by exchanging the rank to "Species", adding "trained=True" to prep_model, and then directly using glyowork.ml.inference.glycans_to_emb (https://github.com/BojarLab/glycowork/blob/master/glycowork/ml/inference.py#L23) to convert your glycans into learned embeddings. Otherwise you can also try retraining.

Hope that's helpful,
Daniel

from sweetnet.

I see. So the GCN model with 3 GraphConv layers, together with the 3 FC layers, are trained for specific prediction tasks. And for each different tasks, the glycan representations will be different because GCN embedding will be based on glycan features that contribute differently in different prediction tasks.

from sweetnet.