RNAmmer is software for predicting ribosomal RNA in full gene sequences.

To use this program at MSI, please send a a request to help@msi.umn.edu and ask to be added to the RNAmmer group. The use of RNAmmer at MSI is limited to academic researchers.

To run this software interactively in a linux environment run the commands:

module load rnammer

​rnammer [options] < [input file]


If you encounter the error: "rnammer: Command not found" or something similar, you are probably not part of the RNAmmer group. Please contact help@msi.umn.edu with a request to be added.

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