Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Some suggestion about GNN #1789

Open
HuangDDU opened this issue Nov 16, 2022 · 1 comment
Open

Some suggestion about GNN #1789

HuangDDU opened this issue Nov 16, 2022 · 1 comment
Labels
data enhancement

Comments

@HuangDDU
Copy link

Is your feature request related to a problem? Please describe.
I want to develop a new model with Pytorch Geometric which is a GNN library based on Pytorch. I hope you can develop some api to make it more easier.

Describe the solution you'd like

  1. Please develop a obsm_field for AnnDataManager to register obsm(n_obs*n_obs) attribute. Because scanpy neighbors save the graph adjacency matrix in obsm as key "connectivities".
  2. DataSplitter in scvi.dataloaders maybe also should be updated to support minibatch operation. This minibatch operation is similar to subgraph extraction.
@adamgayoso
Copy link
Member

Thank you for the request.

We are interested in this but have no estimated timeline for when this would be available.

@martinkim0 martinkim0 added the data label Jul 3, 2023
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
data enhancement
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
3 participants
@adamgayoso @HuangDDU @martinkim0