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'total_count' column in Adamson data is missing #50

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const-ae opened this issue Aug 20, 2024 · 0 comments
Open

'total_count' column in Adamson data is missing #50

const-ae opened this issue Aug 20, 2024 · 0 comments

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@const-ae
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Hi,

I am trying to run scFoundation on the Adamson data (https://figshare.com/articles/dataset/scFoundation_Large_Scale_Foundation_Model_on_Single-cell_Transcriptomics_-_processed_datasets/24049200?file=44498684), but noticed that it is missing the "total_count" column in the obs DataFrame:
image

The DataFrame does contain a column called "read count" and "UMI count", but both are smaller than the number of non-zero entries per cell. What is the best way to add the "total_count" to obs?

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