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aertslab / pycisTopic

pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
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pycistopic qc error #163

Closed Yiming-Huang-neuron closed 2 months ago

Yiming-Huang-neuron commented 2 months ago

Dear, author. Can you help me how to solve the problems with the pycistopic qc error? I'm getting the following error for run pycistopic qc. I try to test one sample of my data. This is my code.

qc_code

However, an error occurred in the log file, as follows:

code_log

I do not know how to fix, please help me.

All the best

Yiming

ghuls commented 2 months ago

You can apply this patch (from the polars_1xx branch): https://github.com/aertslab/pycisTopic/commit/7d9a9ccd19a87925ffee0d33139411e77d462e5a

Or you can change your fragment file to not have the same count value for each fragment (changing one of the counts should be enough).

Yiming-Huang-neuron commented 2 months ago

Thank you very much for your response. The issue has been successfully resolved.