NAME

       fastaq_to_perfect_reads - Make perfect paired reads from reference

DESCRIPTION

       usage: fastaq_to_perfect_reads [options] <infile> <outfile> <mean insert size> <insert std
       deviation> <mean coverage> <read length>

       Makes perfect paired end fastq reads from a sequence file, with insert sizes sampled  from
       a normal distribution. Read orientation is innies. Output is an interleaved FASTQ file.

   positional arguments:
       infile Name of input file

       outfile
              Name of output file

       mean insert size
              Mean insert size of read pairs

       insert std deviation
              Standard devation of insert size

       mean coverage
              Mean coverage of the reads

       read length
              Length of each read

   optional arguments:
       -h, --help
              show this help message and exit

       --fragments FILENAME
              Write FASTA sequences of fragments (i.e. read pairs plus sequences in between them)
              to the given filename

       --no_n Don't allow any N or n characters in the reads

       --seed INT
              Seed for random number generator. Default is to use python's default