ecoli.analysis.multigeneration.ribosome_usage

Record several things: 1. cell volume over time 2. total / active ribosome count and concentration 3. active ribosome molar / mass fraction 4. Ribosome activation / deactivation count 5. # of AA. be translated 6. the effective ribosome elongation rate

ecoli.analysis.multigeneration.ribosome_usage.plot(params, conn, history_sql, config_sql, success_sql, sim_data_dict, validation_data_paths, outdir, variant_metadata, variant_names)

Visualize ribosome usage statistics for E. coli simulation.

Parameters:

• params (dict[str, Any])

• conn (DuckDBPyConnection)

• history_sql (str)

• config_sql (str)

• success_sql (str)

• sim_data_dict (dict[str, dict[int, str]])

• validation_data_paths (list[str])

• outdir (str)

• variant_metadata (dict[str, dict[int, Any]])

• variant_names (dict[str, str])