ntcard1

Usage

Overview

Estimates k-mer coverage histogram in FILE(S).

Acceptable file formats: fastq, fasta, sam, bam and in compressed formats gz, bz, zip, xz. A list of files containing file names in each row can be passed with @ prefix.

Options:

-t, --threads=N

use N parallel threads [1] (N>=2 should be used when input files are >=2)

-k, --kmer=N

the length of kmer

-g, --gap=N

the length of gap in the gap seed [0]. g mod 2 must equal k mod 2 unless g == 0 -g does not support multiple k currently.

-c, --cov=N

the maximum coverage of kmer in output [1000]

-p, --pref=STRING

the prefix for output file name(s)

-o, --output=STRING

the name for output file name (used when output should be a single file)

--help

display this help and exit

--version output version information and exit