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Export to SPRING error #19

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nroak opened this issue Dec 10, 2020 · 0 comments
Open

Export to SPRING error #19

nroak opened this issue Dec 10, 2020 · 0 comments

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@nroak
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nroak commented Dec 10, 2020

I'm using this tutorial for exporting adata object to SPRING input.

First suggestion to update this tutorial, I had to modify this slightly per the updates in the command:
sc.external.exporting.spring_project(adata, './spring_adata',embedding_method='umap',overwrite=True)

However, my main issue is even this command does not completely output the files required for SPRING plot.
Specifically, the directory with files as follows are not created- gene_colors/color_data_all_genes-*.csv
This is a required input for SPRING.
Can you please update the code to reflect this output.

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