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jianhuupenn / SpaGCN

SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network
MIT License
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Example data not available #62

Closed vladimirkovacevic closed 1 year ago

vladimirkovacevic commented 1 year ago

In the tutorial, the data used in the analysis is not available in the repo. Could you maybe add a link to the file? 

adata = read_10x_h5("../tutorial/data/151673/expression_matrix.h5")
spatial=pd.read_csv("../tutorial/data/151673/positions.txt",sep=",",header=None,na_filter=False,index_col=0)
jianhuupenn commented 1 year ago

https://github.com/jianhuupenn/SpaGCN/blob/master/tutorial/download_data.md

vladimirkovacevic commented 1 year ago

Maybe you could add: "Data can be downloaded at: https://drive.google.com/drive/folders/1zten54vkjorp26T4iD0ApQGa9ut5eY42?usp=sharing" To tutorial notebooks.