Cannot find file scalefactors_json.json when running tutorial 1.

JinmiaoChenLab / GraphST

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Cannot find file scalefactors_json.json when running tutorial 1. #5

Closed JINJINT closed 2 years ago

JINJINT commented 2 years ago

Hi,

I was trying to reproduce tutorial 1 but it gives me the following error:

Could not find '151673/spatial/scalefactors_json.json'

Seems like scanpy updates its read_visium function and now the scalefactor is required? If so, where can I find/how can I get such a file?

Thank you very much! And also I really appreciate your impressive work and well-documented code.

Best, Jinjin

longyahui commented 2 years ago

Hi Jinjin,

Thank you for your attention.

Please kindly find 'scalefactors_json.json' files for each sample of DLPFC by the link https://drive.google.com/drive/folders/19wBdOXFxBEmUV5Eb2UTCHSI7BDi-lNoV

I hope it would be helpful for you. Thank you again.

Best regards,
Yahui

JINJINT commented 2 years ago

Thank you so much!