createChemistryHeader - Online in the Cloud

PROGRAM:

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)

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