cusp reads one or more coding sequences (CDS sequence only) and calculates a codon frequency table. The output file can be used as a codon usage table in other applications. Here is a sample session with cusp, using just one sequence. For normal use, extract a set of coding sequences and use them as input: % cusp -sbeg 135 -send 1292 Create a codon usage table Input sequence: embl:paamir Output file [paamir.cusp]: Mandatory qualifiers:
Advanced qualifiers:
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