README.md

In arendsee/zwc: fasta word counter

zwc

I wrote this program because I needed a fast fasta word counter and the EMBOSS wordcount utility is extremely slow.

zwc is on the order of 10X to 100X faster than EMBOSS' program, depending on the parameters and input data.

Installation

Install from github with

library(devtools)
install_github('arendsee/zwc')

Usage

# Get counts of all 2-mers in a fasta file
fasta_wc("my-fasta-file.fa", k=2)

arendsee/zwc documentation built on May 10, 2019, 1:26 p.m.