bamfixflags.py1
Filter readgroup(s) from a bam file
Usage
bamfixflags.py [-h]
[-i
BAM]
-l
FILE
[-n
INT]
[-S]
[-b]
[-u]
Overview
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)