Welcome to the ChromOptimise wiki!

ChromOptimise is a pipeline that identifies the optimum number of states that should be used with ChromHMM's LearnModel command for a particular genomic dataset.

For a quickstart guide, please consult the README on the GitHub page.

This wiki contains further information about the pipeline, including how to set up the configuration files, example usage, pipeline explanation, expected memory usage, processing times and more. To get started, click on the 'documentation' navigation bar at the top of this page.