The St. Petersburg Academic Univesrity genome assembler is intended for both standard isolates and single-cell MDA bacteria assemblies.

  Sample scripts for SPAdes use are available in directory /opt/packages/examples/spades on Bridges.




To see what versions of SPAdes are available type

module avail spades

To see what other modules are needed, what commands are available and how to get additional help type

module help  spades

To use SPAdes, include a command like this in your batch script or interactive session to load the SPAdes module:

module load spades

Be sure you also load any other modules needed, as listed by the module help spades command.