fastaq-to_tiling_bam

FASTAQ-TO_TILING_BAM(1)          User Commands         FASTAQ-TO_TILING_BAM(1)



NAME
       fastaq_to_tiling_bam - Make a BAM file of reads uniformly spread across
       the input reference

DESCRIPTION
       usage: fastaq_to_tiling_bam [options] <infile> <read_length>
       <read_step> <read_prefix> <outfile>

       Takes a sequence file. Makes a BAM file containing perfect (unpaired)
       reads tiling the whole genome

   positional arguments:
       infile Name of input fasta/q file

       read_length
              Length of reads

       read_step
              Distance between start of each read

       read_prefix
              Prefix of read names

       outfile
              Name of output BAM file

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

       --qual_char QUAL_CHAR
              Character to use for quality score [I]

       --read_group READ_GROUP
              Add the given read group ID to all reads [42]

       Important: assumes that samtools is in your path



fastaq 3.17.0                      July 2018           FASTAQ-TO_TILING_BAM(1)