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    • Language Primer
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      • Calling BWA from Seq
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      • Code Listings
      • Getting Started
      • Section 1: Reading sequences from disk
        • Full code listing
      • Section 2: Building an index
        • Full code listing
      • Section 3: Finding k-mer matches
        • Full code listing
      • Section 4: Smith-Waterman alignment and CIGAR strings
        • Full code listing
      • Section 5: Pipelines
        • (Optional) Parallelism
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      • Section 6: Domain-specific optimizations
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    • Subsequence extraction
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    • Count bases
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    • Reverse-complement palindrome
    • Sequence alignment
    • Reading FASTA/FASTQ
    • Reading paired-end FASTQ
    • Parallel FASTQ processing
    • Reading SAM/BAM/CRAM
    • DNA to protein translation
    • Reading protein sequences from FASTA
  • Calling Python from Seq
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  • Standard Library Reference
    • algorithms
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    • bio
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core.collectionsΒΆ

  • core.collections.dict
  • core.collections.khash
  • core.collections.list
  • core.collections.set
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