DOKK / manpages / debian 11 / bamkit / bamtofastq.py.1.en
BAMTOFASTQ.PY(1) User Commands BAMTOFASTQ.PY(1)

bamtofastq.py - Convert a coordinate sorted BAM file to FASTQ

bamtofastq.py [-h] [-r STR] [-n] [-S] [-H FILE] [BAM [BAM ...]]

Convert a coordinate sorted BAM file to FASTQ (ignores unpaired reads)

Input BAM file(s). If absent then defaults to stdin.

show this help message and exit
Read group(s) to extract (comma separated)
Rename reads
Input is SAM format
Write BAM header to file


This manpage was written by Andreas Tille for the Debian distribution and
can be used for any other usage of the program.

June 2020 bamtofastq.py 0.0.1+git20170413.ccd079d