createChemistryHeader.py1
Create a sam header with pacbio sequencing chemistry information
Part of createChemistryHeader(1).
Overview
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_filesBAS_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)
History
- Debian 10 (Buster): the text shown here
- Debian 9 (Stretch)