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)