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List of miscellaneous tools MCCE offers for your research and convenience. Most of these tools support "-h" flags for additional information and use cases. clear_mcce_folder Deletes all MCCE outputs from the present working directory, except: run.prm, the or...

Microstates are 

All MCCE tools relevant to microstate analysis will start with "ms", like 'ms_top2pdbs" and "ms_hbond_percentages.py".  To use any microstate tools, MCCE needs to have the directory "ms_out", produced by "step4.py --ms". Read the steps 1 - 4 tutorial for more...