twopaco1

Overview

USAGE:

twopaco

{-f <integer>|--filtermemory <float>} [-o <file name>] [--test] [--tmpdir <directory name>] [-a <integer>] [-t <integer>] [-r <integer>] [-q <integer>] [-k <oddc>] [--] [--version] [-h] <fasta files with genomes> ...

Where:

-f <integer>, --filtersize <integer>

(OR required)

Size of the filter

-- OR --

--filtermemory <float>

(OR required)

Memory in GBs allocated for the filter

-o <file name>, --outfile <file name>

Output file name prefix

--test

Run tests

--tmpdir <directory name>

Temporary directory name

-a <integer>, --abundance <integer>

Vertex abundance threshold

-t <integer>, --threads <integer>

Number of worker threads

-r <integer>, --rounds <integer>

Number of computation rounds

-q <integer>, --hashfnumber <integer>

Number of hash functions

-k <oddc>, --kvalue <oddc>

Value of k

--, --ignore_rest

Ignores the rest of the labeled arguments following this flag.

--version

Displays version information and exits.

-h, --help

Displays usage information and exits.

<fasta files with genomes>

(accepted multiple times)

(required)

FASTA file(s) with nucleotide sequences.

Program for construction of the condensed de Bruijn graph from complete genomes