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johnkerl committed Feb 16, 2023
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Expand Up @@ -12,7 +12,7 @@ The goal of SOMA (“stack of matrices, annotated”) is a flexible, extensible,
- support access to persistent, cloud-resident datasets
- enable use within popular data-science environments (e.g., R, Python), using the tools of that environment (e.g., Python Pandas integration)
- enable "out-of-core" access to data aggregations much larger than single-host main memory
- enable distributed computation over datasets, and
- enable distributed computation over datasets
- provide a building block for higher-level API that may embody domain-specific conventions or schema around annotated 2D matrices (e.g., a cell "atlas").

The SOMA data model is centered on annotated 2-D matrices, conceptually similar to commonly used single-cell 'omics data structures including Seurat Assay, Bioconductor SingleCellExperiment, and Scanpy AnnData. Where possible, the SOMA API attempts to be general-purpose and agnostic to the specifics of any given environment, or to the specific conventions of the Single Cell scientific ecosystem.
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