[github-actions]

🤖 I have created a release beep boop

1.0.0 (2026-10-19)

Features

• add example sample_sheet from cellranger-multi workflow with 10x MTX encompassing folder path (e4a5d94)
• ensure zarr output is compressed (f3a09fe)
• initial conversion to zarr format and initial raw counts qc plots (ca49f45)
• initial working version of doublet annotation (1f51b6e)
• working version of low quality barcode filtering, including quality control plots with thresholds highlighted (86f48db)
• working version of soupx installation with H5AD reading and writing support, and working version of ambient RNA correction with soupX (4a037c2)

Bug Fixes

• actually make soupX-filtered data the standard count matrix of the resulting AnnData (a0f2336)
• add extra dependencies to scanpy.yaml, to allow for ad-hoc clustering during filtering (to use during soupX ambient RNA correction) (e212c6f)
• copy-pasta error (cff7b66)
• improve quality control logging output formatiing (cb98aa6)
• remove bioconductor-anndatar post-deploy workaround after backported changes have been released properly (a00da04)
• switch everything from Zarr to gzipped H5AD, as Zarr sharding is not yet supported in anndataR and we need an interoperable format for SoupX ambient RNA correction in R (ca94784)
• typo (4390291)
• update get_final_results() to doublet annotation output (2c0bd92)

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