Questions tagged [pytorch-geometric]

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Captum vs GNNExplainer for explainability in Graph Neural Networks

I'm new to Graph Neural Networks and interested in exploring frameworks that allow the identification of nodes/edges that underlie prediction. I came across : (1) a model architecture (GNNExplainer) ...
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Discrepancy between pytorch data and the corresponding networkx graph

I have generated an undirected graph using pytorch_geometric's data object. I used to_networkx functionality of pytorch_geometric to convert it to an undirected <...
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1 vote
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Dying gradient issue in Graph Neural Networks

I am using Pytorch-Geometric library to implement a Graph Convolutional Layer(GCN) followed by few linear layers for a prediction task. But after training on graphs with np. of nodes being 10K and no. ...
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2 answers
514 views

How to apply Geomertic mean in python

I am trying to built a function to calculate the Geometric mean for Growth column and Avg_growth. Year Company Name FH_PBIDT ...
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Weird train and validation curves

I would like to train a GCN for protien-ligand binding affinity regression. I use GCNConv from pytorch geometric, ReLU for all activations and Dropout (0.2) after 2 dense layers each. Using ReLU for ...
3 votes
1 answer
899 views

What is the difference between FC and MLP in as used in PointNet?

I am trying to understand the PointNet network for dealing with point clouds and struggling with understanding the difference between FC and MLP: "FC is fully connected layer operating on each ...
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3 votes
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150 views

Graph Embedding Vs Graph Convolution Network

I'm new in Graph-Embedding and GCN(Graph/Geometric Convolution Network). I'm confused and not very much sure about "How training works in GCN"? As per my understanding, GCN training data will be ...
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1 vote
1 answer
3k views

What does the collate function in pytorch (geometric)?

I am creating a message passing neural network and have some issues with the dataset creation. In pytorch (geometric) it is recommended to create a dataset with the following class. I wonder what is ...
  • 684
8 votes
2 answers
3k views

How to use Graph Neural Network to predict relationships between nodes with pytorch_geometric?

Let's say I have a partly connected graph that represents members of many unrelated communities. I would like to predict the possible friendships between members of the same community: on an sliding ...
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