Each benchmark should clearly state what the benchmark provides, what it requires.
The sequence tolerance benchmark measures the recapitulation of a reference distribution over a sequence space given the conformation of a prototypical sequence. This benchmark models, for example, the tolerated sequences of protein-protein interface or protein domain.
This benchmark includes
"one sentence description of experimental data"
Configuration details for the backrub ensemble protocol described in Smith & Kortemme (2010), Smith & Kortemme (2011).
Analysis scripts that compare a predicted multiple sequence alignment to a reference multiple sequence alignment using 4 recapitulation metrics each based on the position weight matrix estimated for the ensemble.
Each benchmark should clearly state what the benchmark provides, what it requires.
The sequence tolerance benchmark measures the recapitulation of a reference distribution over a sequence space given the conformation of a prototypical sequence. This benchmark models, for example, the tolerated sequences of protein-protein interface or protein domain.
This benchmark includes
The full output of a successful run can be found in the RosettaCommons repositories and http://kortemmelab.ucsf.edu/data/.