Using MUMmer on HPC

MUMmer uses a suffix tree strategy to enable the alignment of genome sized segments very quickly. The complete MUMmer user manual and a tutorial is available at SourceForge. Input sequences need to be in FastA format. Launch each script by typing its name in lower case, e.g:

nucmer E.coli.fsa H.pylori.fsa

See the documentation for all of the script names and uses.