Module needletail::sequence

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Expand description

Generic functions for working with (primarily nucleic acid) sequences

Traits

  • QualitySequence
    [⚠️Unstable] A trait to wrap over sequence data that has associated quality information.
  • Sequence
    A generic FASTX record that also abstracts over several logical operations that can be performed on nucleic acid sequences.

Functions

  • canonical
    Taking in a sequence string, return the canonical form of the sequence (e.g. the lexigraphically lowest of either the original sequence or its reverse complement)
  • complement
    Returns the complementary base for a given IUPAC base code.
  • minimizer
    Find the lexigraphically smallest substring of seq of length length
  • normalize
    Transform a nucleic acid sequence into its “normalized” form.