countChoppedKmers: Function chops k-mers within specified ranges of a sequence...

In kmeRtone: Multi-Purpose and Flexible k-Meric Enrichment Analysis Software

Function chops k-mers within specified ranges of a sequence and counts them. It uses either a substring method or functionalities from the Biostrings package.

Description

Function chops k-mers within specified ranges of a sequence and counts them. It uses either a substring method or functionalities from the Biostrings package.

Usage

countChoppedKmers(dna.seq, starts, ends, k, method = "auto")

Arguments

dna.seq	A string of sequence.
starts	Start positions.
ends	End positions.
k	Size of kmer.
method	Method: "Biostrings" or "substring". Default is Biostrings.

Value

A k-mer-named vector of counts.

kmeRtone documentation built on Sept. 11, 2024, 9:12 p.m.