Man page - ntcard(1)

Packages contains this manual

Package:  ntcard
apt-get install ntcard

Manuals in package:
• nthll(1)
• ntcard(1)
Documentations in package:
• ntcard

Manual

NTCARD

NAME
SYNOPSIS
DESCRIPTION
REPORTING BUGS
AUTHOR

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NAME

ntcard - Streaming algorithm to estimate cardinality in genomics datasets

SYNOPSIS

ntCard [ OPTION ]... FILE(S) ...

DESCRIPTION

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

REPORTING BUGS

Report bugs to https://github.com/bcgsc/ntCard/issues

AUTHOR

This manpage was written by Nilesh Patra for the Debian distribution and
can be used for any other usage of the program.

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