table of contents
| MASON_GENOME(1) | MASON_GENOME(1) |
NAME¶
mason_genome - Random Genome Simulation
SYNOPSIS¶
mason_genome [OPTIONS] [-l LEN]+ -o OUT.fa
DESCRIPTION¶
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.
| mason_genome 2.0.9 [tarball] |