This is the command createChemistryHeader that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
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)
Use createChemistryHeader online using onworks.net services