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base repository: lh3/minimap2
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base: master
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head repository: TrinityCTAT/ctat-minimap2
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compare: master
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  • 17 commits
  • 7 files changed
  • 4 contributors

Commits on Jun 20, 2023

  1. ctat-minimap2 version

    @brianjohnhaas
    brianjohnhaas committed Jun 20, 2023
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  2. skip alignments that have only one alignment chain

    @brianjohnhaas
    brianjohnhaas committed Jun 20, 2023
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  3. added --only_chimeric option

    @brianjohnhaas
    brianjohnhaas committed Jun 20, 2023
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  4. adding paftools.ctat.js which is lenient and avoids crashing - but st… 

    …ill need to understand why the original crashes on the FI gtfs
    @brianjohnhaas
    brianjohnhaas committed Jun 20, 2023
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Commits on Jun 21, 2023

  1. less verbose by default

    @brianjohnhaas
    brianjohnhaas committed Jun 21, 2023
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Commits on Aug 8, 2023

  1. chain identity/overlap check

    @viq854
    viq854 committed Aug 8, 2023
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  2. Fix dash in param name in main.c

    @viq854
    viq854 authored Aug 8, 2023
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  3. Merge pull request #1 from TrinityCTAT/new-chimeric 

    Chain comparison for chimeric alignment filtering
    @brianjohnhaas
    brianjohnhaas authored Aug 8, 2023
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  4. rename ovlp param; update param check to string gt

    @viq854
    viq854 committed Aug 8, 2023
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  5. Merge pull request #2 from TrinityCTAT/new-chimeric 

    Chimeric filtering: minor param check update
    @viq854
    viq854 authored Aug 8, 2023
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Commits on Aug 12, 2023

  1. pursuing candidate chimeric alignments that do not overlap on the ref… 

    … genome and overlap by < --min_overlap_non_chimeric (default 0.25)
    @brianjohnhaas
    brianjohnhaas committed Aug 12, 2023
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  2. Merge pull request #3 from TrinityCTAT/new-chimeric2 

    pursuing candidate chimeric alignments that do not overlap on the ref…
    @brianjohnhaas
    brianjohnhaas authored Aug 12, 2023
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Commits on Aug 17, 2023

  1. added additional debugging verbage

    @brianjohnhaas
    brianjohnhaas committed Aug 17, 2023
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Commits on Aug 19, 2023

  1. check --min-overlap-non-chimeric only when --check_chimeric_query_ove… 

    …rlap set, and off by default
    @brianjohnhaas
    brianjohnhaas committed Aug 19, 2023
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Commits on Dec 18, 2024

  1. merged into latest minimap2 master Dec182024

    @brianjohnhaas
    brianjohnhaas committed Dec 18, 2024
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Commits on Jan 4, 2025

  1. attempt at freeing mem in short-circuiting operation

    @brianjohnhaas
    brianjohnhaas committed Jan 4, 2025
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Commits on Jul 1, 2025

  1. added static to is_non_chimeric()

    @brianjohnhaas
    brianjohnhaas committed Jul 1, 2025
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