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KMC_TOOLS−UNION

NAME

kmc_tools−union − calculate union of two KMC databases

SYNOPSIS

kmc_tools union <input1 [input1_params]> <input2 [input2_params]> <output [output_params]>

DESCRIPTION

The output database will contain all k−mers present in both input sets. For the same k−mers in the first and the second input, the counter in the output is equal to the sum from both inputs.

OPTIONS

For each input there are additional parameters:

−ci<value>

exclude k−mers occurring less than <value> times

−cx<value>

exclude k−mers occurring more of than <value> times

For output there are additional parameters:

−ci<value>

exclude k−mers occurring less than <value> times

−cx<value>

exclude k−mers occurring more of than <value> times

−cs<value>

maximal value of a counter

EXAMPLE

kmc −k28 file1.fastq kmers1 tmp kmc −k28 file2.fastq kmers2 tmp kmc_tools union kmers1 −ci3 −cx70000 kmers2 kmers1_kmers2_union −cs65536

AUTHOR

KMC was originally written by:

• Sebastian Deorowicz (sebastian DOT deorowicz AT polsl DOT pl 〈URL: mailto:sebastian.deorowicz@polsl.pl 〉)

• Marek Kokot

• Szymon Grabowski

• Agnieszka Debudaj−Grabysz

COPYING

KMC is a free software distributed under GNU GPL3 licence for academic, research, and commercial use.

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