Man page - simple(1)

Packages contains this manual

Package: meryl
apt-get install meryl

Manuals in package:

simple(1)
meryl(1)
kmer-mask(1)

Documentations in package:

meryl

Manual

SIMPLE

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
SEE ALSO

NAME

simple - the obvious array-based kmer counter

SYNOPSIS

simple [ -f | -r | -C ] [ -c compression ] [ -m mersize ] -i input -o output

DESCRIPTION

simple is a very simple mer counter. It allocates a gigantic 32-bit array, populates the array with mers, sorts, and writes the output. It will allocate 4 bytes per kmer. k=16 will require 16 GB to run.

OPTIONS

-i input
-o output
-m mersize

the mer size. Default is 22

	-f		forward kmer (this is the default)
	-r		reverse kmer
	-C		canonical kmer (lexicographically smaller of the forward and reverse kmer at each location)
	-c #		mer compression