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ebi-gene-expression-group / container-galaxy-sc-tertiary

Galaxy container for single cell RNA-Seq tertiary analysis tools
MIT License
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Decoupler: Add default values for `min_total_counts` and `min_counts`.. #325

Open pavanvidem opened 1 month ago

pavanvidem commented 1 month ago

.. or modify python script to use them optionally. With the default values, the tool fails: https://help.galaxyproject.org/t/decoupler-on-anndata-object-from-scanpy-task-fails/12753/3

pcm32 commented 1 month ago

I'm under the impression that the error cited there is not about min_*counts, but related to the contents of the matrix maybe, or, due to the instance using a conda installation (which can lead to much havoc) instead of a container for resolving the dependencies.