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becavin-lab / checkatlas

One liner tool to check the quality of your single-cell atlases.
https://checkatlas.readthedocs.io/en/latest/
BSD 3-Clause "New" or "Revised" License
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Automatic/Semi-automatic search of celltype key #13

Closed drbecavin closed 1 year ago

drbecavin commented 2 years ago

In the search of the feature used to describe celltype, need to add some obs keyword. For the moment everything is in 

atlas.OBS_CLUSTERS = [
    "CellType",
    "celltype",
    "seurat_clusters",
    "orig.ident",
]

Need to fix this !

Maybe add an argument in chckatlas software so theused can tell us what is the right obs key ?