man kmc_tools-counters_subtract (1): 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 (

: • Marek Kokot

: • Szymon Grabowski

: • Agnieszka Debudaj-Grabysz

COPYING