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aertslab / scenicplus

SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.
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ModuleNotFoundError: No module named 'scenicplus.dimensionality_reduction' #417

Closed dsecilmis closed 2 months ago

dsecilmis commented 5 months ago

Trying to run plot_perturbation_effect_in_embedding(...) but getting the following ModuleNotFoundError: No module named 'scenicplus.dimensionality_reduction'.

Indeed I cannot find the dimensionality_reduction module in the repo. I also checked if the plot_metadata_given_ax function has been moved somewhere else but couldn't find it. Any idea where it might be?

Thanks!

SeppeDeWinter commented 2 months ago

Hi @dsecilmis

This code has now been updated: https://scenicplus.readthedocs.io/en/latest/Perturbation_simulation.html#Tutorial:-Perturbation-simulation

All the best,

Seppe