module Meru::Kmer

Extended Modules

• Meru::Kmer

Defined in:

meru/kmer.cr

Constant Summary

MAX_K = 32

Instance Method Summary

• #canonical(forward : Encoded, reverse_complement : Encoded) : Encoded
• #each_canonical(seq : String | IO::Memory, k : Int32, & : Encoded -> )

  Rolling 2-bit encoding keeps the implementation compact while avoiding re-encoding every window from scratch.

• #each_canonical_bytes(bytes : Bytes, k : Int32, & : Encoded -> )
• #reverse_complement(kmer : Encoded, k : Int32) : Encoded
• #validate_k!(k : Int32)

Instance Method Detail