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KMC_TOOLS-COUNTERS_SUBTRACT(1)   KMC_TOOLS-COUNTERS_SUBTRACT(1)

NAME

kmc_tools-counters_subtract - calculate counters subtraction of two KMC databases

SYNOPSIS

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

DESCRIPTION

The output database will contain only k-mers that are present in the first input set and have counters higher than the appropriate k-mers in the second set. For each k-mer the counter is equal to the difference between the counter in the first set and the counter in the second set.

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 counters_subtract kmers1 kmers2 kmers1_kmers2_counters_subtract

AUTHOR

KMC was originally written by:

•Sebastian Deorowicz ( <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.