Module kmer 

Encoded sequences of static length

Generally, the underlying storage type of Kmer should lend itself to optimisation. The default Kmer instance is packed into a usize, which can be efficiently Copyed on the stack.

k * codec::BITS must fit in the storage type, e.g. usize (64 bits).

use bio_seq::prelude::*;

for (amino_kmer, amino_string) in Seq::<Amino>::try_from("SSLMNHKKL").unwrap()
        .kmers::<3>()
        .zip(["SSL", "SLM", "LMN", "MNH", "NHK", "HKK", "KKL"])
    {
        assert_eq!(amino_kmer, amino_string);
    }

Kmers can be copied from other sequence types:

let kmer: Kmer<Dna, 8> = dna!("AGTTGGCA").try_into().unwrap();

Structs

Kmer

By default k-mers are backed by usize and Codec::BITS * K must be <= 64 on 64-bit platforms

KmerIter

An iterator over all kmers of a sequence with a specified length

Traits

KmerStorage