RNAstructure Command Line Help
EDcalculator is used to calculate the Ensemble Defect (ED) of a structure or structures in a CT file or Dot-Bracket file. This is a measure of how much a single structure deviates from the basepair probabilities calculated for the ensemble of possible structures with the same sequence.
EDcalculator-smp is a parallel processing version for use on multi-core computers.
The program outputs both the total ED and the"normalized" ED (i.e. the total divided by the number of nucleotides in the sequence).
USAGE: EDcalculator <structure file> [options]
OR: EDcalculator-smp <structure file> <energy file> [options]
Options that do not require added values:
Options that require added values:
Notes for smp:
The -smp, by default, will use all available compute cores for processing. The number of cores used can be controlled by setting the OMP_NUM_THREADS environment variable.
Visit The Mathews Lab RNAstructure Page for updates and latest information.