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kmc_tools-intersect - Online in the Cloud

Run kmc_tools-intersect in OnWorks free hosting provider over Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

This is the command kmc_tools-intersect that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

NAME


kmc_tools-intersect - calculate intersection of two KMC databases

SYNOPSIS


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

DESCRIPTION


The output database will contain only k-mers that are present in both input sets. The
counter value in the output database is equal to the lower counter value in the input.

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 intersect kmers1 -ci10 -cx200 kmers2 -ci4 -cx100 kmers1_kmers2_intersect -ci20 -cx150

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