BAMFIXFLAGS.PY(1)

NAME
bamfixflags.py - filter readgroup(s) from a BAM file

SYNOPSIS
bamfixflags.py [-h] [-i BAM] -l FILE [-n INT] [-S] [-b] [-u]

DESCRIPTION
filter readgroup(s) from a BAM file

OPTIONS

  optional arguments:

-h, --help
    show this help message and exit

-i BAM, --input BAM
    Input BAM file

-l FILE, --lib_info FILE
    SVTyper JSON file of library information

-n INT
    Output first n alignments and quit

-S  Input is SAM format

-b  Output BAM format

-u  Output uncompressed BAM format (implies -b)

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