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createChemistryHeader - Online in the Cloud

Run createChemistryHeader in OnWorks free hosting provider over Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

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)

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