About the Similarity Matrix

[youngbo9i]

Your drug similarity matrix does not match the Jaccard similarity matrix properties, for example, the diagonal elements should all be 1 but you have them all at 0. Am I missing something? Thank you in advance.

[storyandwine]

Because GCN's normalization has one step of adding identity matrix, there is no need to set diagonal elements as 1 in similarity matrix.

[youngbo9i]

identity matrix

Isn't the identity matrix added to the adjacency matrix, which is equivalent to self-connection, but the diagonal of the similarity matrix is still 0, am I missing something? Thank you in advance.

[storyandwine]

[youngbo9i]

Understood, thank you very much for your patience