DOKK / manpages / debian 12 / kmc / kmc_tools-union.1.en
KMC_TOOLS-UNION(1)   KMC_TOOLS-UNION(1)

kmc_tools-union - calculate union of two KMC databases

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

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.

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

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

KMC was originally written by:

•Sebastian Deorowicz ( <sebastian.deorowicz@polsl.pl>)

•Marek Kokot

•Szymon Grabowski

•Agnieszka Debudaj-Grabysz

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