mason_genome(1)

Usage

mason_genome [OPTIONS] [-l LEN] + -o OUT.fa

Overview

Simulate a random genome to the output file. For each -l/--contig-length entry, a contig with the given length will be simulated.

Options

-h, --help: Display the help message.

--version: Display version information.

-q, --quiet: Set verbosity to a minimum.

-v, --verbose: Enable verbose output.

-vv, --very-verbose: Enable very verbose output.

Simulation Configuration:

-l, --contig-length List of INTEGER's: Length of the contig to simulate. Give one -l value for each contig to simulate. In range [1..inf].

-s, --seed INTEGER: The seed to use for the random number generator. Default: 0.

Output Options:

-o, --out-file OUTPUT_FILE: Output file. Valid filetypes are: .sam[.*], .raw[.*], .frn[.*], .fq[.*], .fna[.*], .ffn[.*], .fastq[.*], .fasta[.*], .faa[.*], .fa[.*], and .bam, where * is any of the following extensions: gz, bz2, and bgzf for transparent (de)compression.

Examples

mason_genome -l 1000 -l 4000 -o genome.fa: Simulate a genome with two contigs of lengths 1000 and 4000 and write it to genome.fa.

Releases

5 releases since Debian 9 (Stretch); the text changed 1 time.

9
10–13

--help since Debian 10 (Buster); --out-file since Debian 10 (Buster); --quiet since Debian 10 (Buster); --seed since Debian 10 (Buster); --verbose since Debian 10 (Buster); --version since Debian 10 (Buster); --very-verbose since Debian 10 (Buster); -h since Debian 10 (Buster); -o since Debian 10 (Buster); -q since Debian 10 (Buster); -s since Debian 10 (Buster); -v since Debian 10 (Buster); -vv since Debian 10 (Buster).