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ebi-gene-expression-group / scanpy-scripts

Scripts for using scanpy
Apache License 2.0
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n_genes in the var table #92

Closed ksenia007 closed 3 years ago

ksenia007 commented 3 years ago

This might be a naive question, but why are we assigning n_genes column to the var table? It was my understanding, that var column contains information about genes, while obs about the cells and summing on this axis would return n_cells. Is that not the case?

https://github.com/ebi-gene-expression-group/scanpy-scripts/blob/2eefc331be98119448c5b6706363cd2d571645d2/scanpy_scripts/lib/__init__.py#L198

nh3 commented 3 years ago

Sorry for the very late reply. It was indeed a typo and was fixed as part of a major revision in 0060803ba669bbe8623ef096b075d1294d9ed7b6. Thank you very much for reporting.