README.mason_genome.md

Mason Genome

Overview

The program mason_genome is a simple sequence simulator.

Examples

Help

The command:

  $ mason_genome --help

prints the help for Mason Genome.

Simulating a Genome

We call mason_genome to simulate a genome with sequences of length 100, 200, and 1000.

  $ mason_genome -l 100 -l 200 -l 1000 -o simulated.fa
  ...
  $ head simulated.fa
  >1
  GGGTGTGTCGGCCCTATCCCTTGCGCTTACAGACTTTATTTCTTCGTGAGGGAGTTGACCCATGCAGAAC
  GAGAGCTTGCCGCTGAATGGGAACATCGCC
  >2
  GACGTTAGAGATGGCCCCAGACAGGCATATCGTAAGTGATTTCGTAGCGAACCTACCCAGCTCTAAGGGT
  CGGTATGATCCAGTAGGTCCACGGAATCAAGGCGGCTCATGCGTGGATTGCCTTGACTTCCGTAGCTTGG
  GGGGTAGCCGGCACCGGCCCGGCTAACAGCGGGAGTGCCATACACTTCTGGCAATCGCTT
  >3
  ATTAAGGAATTTTCGACAATGCCCGATCTATAATCTGGACGCACAAAATCATCTTGGGATAGGAGGATTC
  GGGTGTGTCGCAAAAATGGCCTAGCAAACCCTGTCGAGATAGGCCGGGTGTCACGTCAAATTCTCGGCTG