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Changelog

Source: NEWS.md

scFlex 0.1.1

  • Added automatic detection and joining of split Seurat v5 Assay5 layers such as counts.sample1, counts.sample2, and matching data.* layers.
  • Counts-only Seurat objects can now be written to AnnData without normalization; counts are placed in X and layers["counts"] with an explicit conversion note.
  • inspect_sc() now reports detected count and normalized-data layer groups for Assay5 objects.
  • check_input_info() is retained as a compatibility wrapper but points users to inspect_sc().
  • Improved assay-cell, feature-metadata, and reduction alignment during Seurat extraction.

scFlex 0.1.0

CRAN release: 2026-09-29

  • Initial development release.
  • Adds a common convert_sc() interface for Seurat, SingleCellExperiment, AnnData, and Loom.
  • Preserves aligned counts, normalized expression, cell/feature metadata, and compatible dimensional reductions.
  • Adds Seurat classic Assay <-> Assay5 conversion helpers.
  • Uses reticulate::py_require() instead of a hard-coded Conda environment.