count_kmers_str: Count k-mers for string sequences (the size of k-mer should...
In piotr-ole/kmer: kmer counting package

Count k-mers for string sequences (the size of k-mer should be larger than one)

1	count_kmers_str(s, d, alphabet, pos)

`s`	a `string` vector representing an input sequence
`d`	an `integer` vector representing gaps between consecutive elements of k-mer
`alphabet`	a `string` vector representing valid elements of k-mer
`pos`	a `logical` value that denotes whether positional k-mers should be generated

K-mers that contain elements from alphabet but do not exist in the input sequence are also generated.

a named vector with counts of k-mers

count_kmers_str(
c("a", "b", "c", "d", "x", "y", "z", "z", "a", "a"),
d=c(0,0),
c("a", "b", "c", "z"),
pos=FALSE)

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

piotr-ole/kmer index

README.md

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