shruti

AUCell - AttributeError: 'Series' object has no attribute 'iteritems'

1

I get the following error while trying to run AUCell step from the tutorial (http://htmlpreview.github.io/?https://github.com/aertslab/SCENICprotocol/blob/master/notebooks/PBMC10k_SCENIC-protocol-CLI.html) /home/xx/.local/bin/pyscenic aucell filtered_scenic.loom reg.csv --output pyscenic_output.loom --num_workers 4 2023-05-03 15:40:13,037 - pyscenic.cli.pyscenic - INFO -...

create a squidpy or R object using baysor output

3

Hi, I want to use baysor segmentation on my CosMx data and then visualize it in R/Python. CosMx usually outputs 5 files which are used by Seurat/Squidpy to create the...