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 <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.

                                                                                                    KMC_TOOLS(1)