Much of the information here is also contained in the documentation of the Python modules themselves. A full list of command-line parameters can be printed to screen using the help option, with short descriptions for each one:
python program.py help
python program.py -help
python program.py -hDetails of command-line options specific to each program can also be found in the distributed readme.txt and readme.html files.
You can also retrieve documentation for a given program by replacing sitemap in the box below and clicking View Documentation. Leaving sitemap in the box will list all modules, which can then be clicked on.
If stuck, or something is unclear, then please e-mail me (seqsuite@gmail.com) whatever question you have. If it is the results of an error message, then please send me that and the log file too.
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