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NOTE: This feature is experimental and unsupported.

“cmd.super” performs a residue-based pairwise alignment followed by a structural superposition, and then carries out zero or more cycles of refinement in order to reject outliers.


def super(mobile, target, cutoff=2.0, cycles=5,
          gap=-1.5, extend=-0.7, max_gap=50, object=None,                            
          matrix="BLOSUM62", mobile_state=0, target_state=0, 
          quiet=1, max_skip=0, transform=1, reset=0,
          seq=0.0, radius=12.0, scale=17.0, base=0.65,
          coord=0.0, expect=6.0, window=3, ante=-1.0):

See Also

api/cmd/super.txt · Last modified: 2013/08/19 21:01 (external edit)