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
options:
- -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