---
name: "fastaq_to_tiling_bam"
section: "1"
platform: "linux"
package: "fastaq"
version: "1.5.0-1"
release: "Debian 8 (Jessie)"
platforms: ["linux"]
url: "https://new.carta.tech/fastaq_to_tiling_bam"
---

# fastaq\_to\_tiling\_bam(1)

## NAME

fastaq\_to\_tiling\_bam

## DESCRIPTION

 fastaq\_to\_tiling\_bam \[options\] \<fasta/q in\> \<read length\> \<read step\> \<read prefix\> \<out.bam\>

Takes a fasta/q 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

- **--read\_group** READ\_GROUP

  Add the given read group ID to all reads \[42\]

Important: assumes that samtools is in your path

## AUTHOR

fastaq\_to\_tiling\_bam was originally written by Martin Hunt (mh12@sanger.ac.uk)

## COPYING

Wellcome Trust Sanger Institute Copyright © 2013 Wellcome Trust Sanger Institute This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or (at your option) any later version.