Implement algorithm from Seet et al. for pathway reconstruction - #146
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champagnealexandre wants to merge 2 commits into
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Implement algorithm from Seet et al. for pathway reconstruction#146champagnealexandre wants to merge 2 commits into
champagnealexandre wants to merge 2 commits into
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- Add --extract-pathway CLI flag to extract and print assembly pathways - Add src/pathway.rs: bottom-up pathway reconstruction from top-down decomposition - Extend index_search return type with pathway and decomposition data - Add pathway_search() Python binding with pathway extraction enabled - Add scripts/compare_pathways.sh for validating against assemblycpp-v5
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Subsumed by #153. |
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Pull request as discussed, implementing pathway reconstruction, written with the help of Claude.
Description:
assembly.rs(+144) andpathway.rs(new, +241)--extract-pathwaypathway_searchAssemblyCPPusingvalidate_pathways.pyREADME.mdand existing tests/benchmarks