All pull requests

Pull requests

• Do IO error handling in the reader thread instead of mapper.

  #676·Alfonsson opened Oct 29, 2026Collaborator·

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• Early stop heuristic for local start/end alignments.

  #674·NicolasBuchin opened Oct 25, 2026Collaborator·

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• Use the ungapped alignment between anchors when it is provably optimal

  #673·ksahlin opened Oct 24, 2026Owner·

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• Look up fewer filtered hits during anchor recovery

  #658·ksahlin opened Oct 14, 2026Owner·

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• Recover anchors from filtered hits after chaining

  #657·ksahlin opened Oct 14, 2026Owner·

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• Duplications detection and supplementary records

  #656·NicolasBuchin opened Oct 13, 2026Collaborator·

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  13

• Prune chain candidates that cannot start a chain

  #654·ksahlin opened Oct 10, 2026Owner·

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• Skip chaining score computations that cannot improve the score

  #653·ksahlin opened Oct 10, 2026Owner·

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• Sort anchors with a bucket sort

  #647·ksahlin opened Sep 30, 2026Owner·

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  1

• Use galloping search in IndexEntry::get_count

  #643·ksahlin opened Sep 30, 2026Owner·

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  1

• Use parallel in-place MSD radix sort for sorting randstrobes

  #640·ksahlin opened Sep 23, 2026Owner·

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• Add anchors from filtered hits to the chains after chaining

  feature
  #622·NicolasBuchin opened Aug 13, 2026Collaborator·

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  3

• Trim a piecewise alignment to its best-scoring segment

  feature
  #621·NicolasBuchin opened Aug 6, 2026Collaborator·

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  2

• Compute single-end MAPQ score better by considering at least two mappings.

  #600·ksahlin opened Jun 11, 2026Owner·

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• Add repetitive hits that are close to non-repetitive hits with a linear sweep

  #590·ksahlin opened Jun 4, 2026Owner·

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  3

• Re-arranged commits paired extension alignment PR

  #584·marcelm opened May 5, 2026Collaborator·2 tasks done·

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• Perf optimizations

  #566·parlar opened Mar 3, 2026·

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  1

• Non-canonical syncmers

  #546·marcelm opened Jan 30, 2026Collaborator·

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  1