Visible graph for prostate data

zhanglab-aim / cancer-net

Diagnosing cancers using deep learning.

GNU General Public License v2.0

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Visible graph for prostate data #5

Closed Chris-Pedersen closed 2 years ago

Chris-Pedersen commented 2 years ago

This notebook contains a graph network model capable of multiple passes (InteractionNetworkMulti), and a model to create multiple of these subgraphs with genes grouped using Pnet pathways, and apply either a fully connected or a sparse pnet layer to the output (VisibleGraphInteractionNet).

zj-zhang commented 2 years ago

@Chris-Pedersen Is the implementation for VisibleDense also added? presumably in file pnet_utils.py Right now it seems only the jupyter notebook is in the commit.

Chris-Pedersen commented 2 years ago

Ah yes currently the code points to the pnet_utils.py in your directory on rusty instead of using the one in the repo. We should tidy this up - is it ready to merge?