count_kmers_helper: Count k-mers

In piotr-ole/kmer: kmer counting package

Description

Counts the occurrences of k-mers (the size of k-mer should be larger than one)

Arguments

s	integer vector representing encoded input sequence
d	integer vector representing gaps in k-mer
alphabet	integer vector representing encoded alphabet
num2str	hash map representing the sequence elements encoding between integer and string
kmer_decorator	function that can add extra characters in order to enhance the presentation of string k-mer
pos	logical value representing whether to count positional k-mers

Value

hash map whose key is a string presentation of k-mer and value is the number of its occurrences

piotr-ole/kmer documentation built on Nov. 14, 2019, 8:10 p.m.