fastaq-to_tiling_bam1
Make a bam file of reads uniformly spread across the input reference
Overview
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
Releases
5 releases since Debian 9 (Stretch); the text changed 4 times.