-v - verbose mode (shows all parameter settings); default: false

-k <len> - k-mer length (k from 1 to 256; default: 25)

-m <size> - max amount of RAM in GB (from 1 to 1024); default: 12

-sm - use strict memory mode (memory limit from -m <n> switch will not be exceeded)

-hc - count homopolymer compressed k-mers (approximate and experimental)

-p <par> - signature length (5, 6, 7, 8, 9, 10, 11); default: 9

-f <a/q/m/bam/kmc> - input in FASTA format ( -fa ), FASTQ format ( -fq ), multi FASTA ( -fm ) or BAM ( -fbam ) or KMC( -fkmc ); default: FASTQ

-ci <value> - exclude k-mers occurring less than <value> times (default: 2)

-cs <value> - maximal value of a counter (default: 255)

-cx <value> - exclude k-mers occurring more of than <value> times (default: 1e9)

-b - turn off transformation of k-mers into canonical form

-r - turn on RAM-only mode

-n <value> - number of bins

-t <value> - total number of threads (default: no. of CPU cores)

-sf <value> - number of FASTQ reading threads

-sp <value> - number of splitting threads

-sr <value> - number of threads for 2nd stage

-j <file_name> - file name with execution summary in JSON format

-w - without output

-o <kmc/kff> - output in KMC of KFF format; default: KMC

-hp - hide percentage progress (default: false)

-e - only estimate histogram of k-mers occurrences instead of exact k-mer counting

--opt-out-size - optimize output database size (may increase running time)