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JinmiaoChenLab / SpatialGlue_notebook

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ground truth annotation #2

Open DruncBread opened 2 months ago

DruncBread commented 2 months ago

Hello! I am currently running your benchmark code. I would like to calculate the metrics of each method but I couldn't find the ground truth annotation mentioned in the SpatialGlue paper. Can you help me solve my problem? Thank you very much!

ZhiWeiZhang0336 commented 2 months ago

Dr. Yahui Long,

I have a couple of questions and issues regarding the provided data and links:

I would like to know if the ground truth annotations used in all adata_all data are the label_origi or label_new in the obs of the AnnData?

There seems to be an issue with the links provided for the benchmarking results. Both the human lymph node samples and the simulation data refer to the same Google Drive link (https://drive.google.com/drive/u/0/folders/1HWdVjYvQ9jDQnjcheAMN6qndXiHRPnWs), but the link for the simulation data appears to be incorrect. Could you please provide the correct link for the simulation data?

Thank you for your assistance!

Best regards

DM0815 commented 1 week ago

Dr. Yahui Long,

I have a couple of questions and issues regarding the provided data and links:

I would like to know if the ground truth annotations used in all adata_all data are the label_origi or label_new in the obs of the AnnData?

There seems to be an issue with the links provided for the benchmarking results. Both the human lymph node samples and the simulation data refer to the same Google Drive link (https://drive.google.com/drive/u/0/folders/1HWdVjYvQ9jDQnjcheAMN6qndXiHRPnWs), but the link for the simulation data appears to be incorrect. Could you please provide the correct link for the simulation data?

Thank you for your assistance!

Best regards

I also found it, I want to know if he share the correct file with you.