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include Combine-R and Combine-S formats#156

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davidbonet wants to merge 3 commits into
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combine
Open

include Combine-R and Combine-S formats#156
davidbonet wants to merge 3 commits into
mainfrom
combine

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@davidbonet

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  • Add new SNP-ancestry Combine format support: Combine-R (unphased calldata + local ancestry dosages) and Combine-S (phased hap counts x ancestry + local ancestry dosages).
  • Expose Python IO handlers adelie.io.snp_combine_r / adelie.io.snp_combine_s, and matrix wrappers adelie.matrix.snp_combine_r / adelie.matrix.snp_combine_s.
  • Add tests for new formats.

@davidbonet davidbonet requested a review from JamesYang007 March 10, 2026 01:52
…e directories based on environment variables and system type, and error handling for missing Eigen headers
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