bauhaus2 is a simplistic tertiary analysis engine for in-house use
at PacBio, enabling execution of analysis workflows from raw data to
multi-condition analysis plots.
bauhaus2 is best understood as a compiler. It accepts the user's
specification of the experiment (a CSV table with a well-defined
schema), validates the table, resolves the
inputs (which can be referred to symbolically using runcodes, or
job identifiers, or explicitly using paths), and then generates an
output directory containing a Snakemake workflow and a driver script
(run.sh). Users can simply execute the run.sh script---the
environment will be properly configured and the workflow will execute.
Please read the usage tutorial.
Please read the [workflow author tutorial](./doc/WorkflowAuthorTutorial.md
The original bauhaus was a prototype. It had problems, which you
can read about here.
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