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  1. minimap2 minimap2 Public

    A versatile pairwise aligner for genomic and spliced nucleotide sequences

    C 2k 439

  2. bwa bwa Public

    Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

    C 1.6k 563

  3. minigraph minigraph Public

    Sequence-to-graph mapper and graph generator

    C 450 39

  4. miniprot miniprot Public

    Align proteins to genomes with splicing and frameshift

    C 375 21

  5. pangene pangene Public

    Constructing a pangenome gene graph

    C 193 12

  6. ropebwt3 ropebwt3 Public

    BWT construction and search

    C 116 5

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