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.