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theislab / scgen

Single cell perturbation prediction
https://scgen.readthedocs.io
GNU General Public License v3.0
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Please help with the train_pbmc.h5ad #50

Closed bitcometz closed 3 years ago

bitcometz commented 3 years ago

hello,

I want to do the analysis in order to reproduce paper according to this notebook: https://nbviewer.jupyter.org/github/M0hammadL/scGen_reproducibility/blob/master/Jupyter%20Notebooks/Fig2.ipynb

pbmc = sc.read("../data/train_pbmc.h5ad")

But I cannot find the train_pbmc.h5ad file. Could you help with this problem ?

Thanks!!!

Cottoneyejoe95 commented 3 years ago

Hi,

there is a data downloader script in the reproducibility repo. Did you run that already?

https://github.com/theislab/scgen-reproducibility/blob/master/code/DataDownloader.py

Cottoneyejoe95 commented 3 years ago

I will close the issue here, since it belongs to the other repo and you created the same issue there. :)