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= kmc_tools(1)
== NAME
kmc_tools - additional operations on k-mer databases
== SYNOPSIS
*kmc_tools* [global parameters] <operation> [operation parameters]
== DESCRIPTION
This command and its various subcomments implement a number of operations on
KMC databases.
=== k-mers sets operations for 2 KMC databases
*intersect*::
intersection of 2 k-mers sets
*kmers_subtract*::
subtraction of 2 k-mers sets
*counters_subtract*::
counters subtraction of 2 k-mer sets
*union*::
union of 2 k-mers sets
=== operations for single kmc database
*sort*::
sorts k-mers from database generated by KMC2.x
*reduce*::
exclude too rare and too frequent k-mers
*compact*::
remove counters (store only k-mers)
*histogram*::
histogram of k-mers occurr ences
*dump*::
dump k-mers and counters to text file
=== more complex operations:
*complex*::
complex operations with a number of input databases
=== other operations:
*filter*::
filter out reads with too small number of k-mers
== OPTIONS
=== global parameters:
*-t<value>*::
total number of threads (default: no. of CPU cores)
*-v*::
enable verbose mode (shows some information) (default: false)
*-hp*::
hide percentage progress (default: false)
== EXAMPLE
kmc_tools union db1 -ci3 db2 -ci5 -cx300 db1_union_db2 -ci10
== SEE ALSO
kmc(1), kmc_tools-histogram(1), kmc_tools-compact(1), kmc_tools-intersect(1),
kmc_tools-complex(1), kmc_tools-kmers_subtract(1), kmc_tools-counters_subtract(1),
kmc_tools-sort(1), kmc_tools-dump(1), kmc_tools-union(1), kmc_tools-filter(1)
== AUTHOR
KMC was originally written by:
- Sebastian Deorowicz (sebastian.deorowicz@polsl.pl)
- Marek Kokot
- Szymon Grabowski
- Agnieszka Debudaj-Grabysz
== COPYING
KMC is free software distributed under GNU GPL3 licence for academic,
research, and commercial use.
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