feat: rewrite the CosMx reader (stitching, multimodal, co-registration)#406

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timtreis:feat/cosmx-reader-rewrite

Commits on Jun 28, 2026

feat(cosmx): rewrite the CosMx reader

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feat(cosmx): add @inject_docs(cx=CosmxKeys) and document file suffixes
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refactor(cosmx): move the reader into a cosmx/ subpackage
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test(cosmx): trim to behavioral/E2E coverage
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refactor(cosmx): DRY the reader's parse/id boilerplate
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refactor(cosmx): unify co-registration on the segmentation (label-anchored)
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test(cosmx): guard label-anchored orphan-keeping + polygon cellID prescan
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fix(cosmx): harden the max-cell_ID pre-scan against schema drift

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refactor(cosmx): reuse core utilities instead of bespoke helpers

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