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Prototype for loading cell-by-gene matrices#1525

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feature-cell-by-gene-matrix-loader
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Prototype for loading cell-by-gene matrices#1525
arteymix wants to merge 1 commit into
developmentfrom
feature-cell-by-gene-matrix-loader

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@arteymix arteymix commented Oct 6, 2025

Two main cases are covered:

  • a single file, samples are resolved by matching cell IDs
  • multiple files, the sample names must be provided for each file (could be a filename, but since those are coming from GEO, we can find a way to supply the sample metadata)

TODO:

  •  detect QT from data and possibly also from GEO metadata (i.e. has the data been log-transformed?)
  • integrate this in loadSingleCellData by adding a new data format
  • detect and download cell by gene files from GEO series/sample metadata and hook that in downloadSingleCellData

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Add a single-cell data loader for tabular cell by gene matrices

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