Ubuntu Manpage: createChemistryHeader.py - Create a SAM header with PacBio sequencing chemistry information

name
description

NAME

       createChemistryHeader.py - Create a SAM header with PacBio sequencing chemistry information

DESCRIPTION

       usage: getChemistryHeader.py [-h] [--debug] --bas_files BAS_FILES

       [BAS_FILES ...]
              input_alignment_file output_header_file

       createChemistryHeader creates a SAM header that contains the chemistry information used by Quiver.

   positional arguments:
       input_alignment_file
              A SAM or BAM file produced by BLASR.

       output_header_file
              Name of the SAM or BAM header file that will be created with chemistry information loaded.

   optional arguments:
       -h, --help
              show this help message and exit

       --debug
              Output detailed log information. (default: False)

       --bas_files BAS_FILES [BAS_FILES ...]
              The  bas or bax files containing the reads that were aligned in the input_alignment_file. Also can
              be a fofn of bas or bax files. (default: None)