CD-HIT is a program for clustering large protein database at high sequence identity threshold. The program removes redundant sequences and generate a database of only the representatives. It can be applied in protein family classification, domain analysis, organizing large protein databases, improving performance of database search, and much more.

To run this software interactively in a Linux environment on Itasca, run the commands:

module load cd-hit/4.6.1

On the lab machines, use the following commands:

module load cdhit/4.3

cd-hit can be called as: cd-hit optionshere
More information is available here

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