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.