MUMmer is a bioinformatics program designed to align very large genomic and protein sequence datasets using an ultra-fast algorithm. The program is designed specifically to handle aligning entire genomes very quickly.

Using MUMmer on RCC Resources

Using MUMmer on RCC resources does not require a module to be loaded.

To run MUMmer via the command line, use the format mummer -[OPTIONS] REF_FILE QUERY. Replace the -[OPTIONS] with the list of options required for your job. Replace the REF_FILE argument with your reference file and the QUERY argument with your query file(s). 

For detail usage documentation for MUMmer, refer to the official website, where you will find a user manual and a set of tutorials for the program.