YangLabHKUST / STitch3D

Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices
https://stitch3d-tutorial.readthedocs.io/en/latest/index.html#
MIT License
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Mouse brain dataset #28

Closed Super-LzzZ closed 5 months ago

Super-LzzZ commented 5 months ago

Dear Professor, Thanks for your explanation and patience !
In the example1 of tutorials, When loading the single cell reference dataset about the file "./data/MouseBrain/all_cells_20200625.h5ad" and ". /data/MouseBrain/snRNA_annotation_astro_subtypes_refined59_20200823.csv", is it possible to get them directly or should I go through some kind of processing to get them ?

Thanks !

gefeiwang commented 5 months ago

Hi Zhongming,

You can use the following code to get the data: wget https://cell2location.cog.sanger.ac.uk/tutorial/mouse_brain_snrna/all_cells_20200625.h5ad; wget https://cell2location.cog.sanger.ac.uk/tutorial/mouse_brain_snrna/snRNA_annotation_astro_subtypes_refined59_20200823.csv

Best, Gefei