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| void | protocols::medal::alignment_probabilities (core::Size const num_residues, const core::sequence::SequenceAlignment &alignment, Probabilities *p) |
| | Computes per-residue alignment probabilities. To minimize assumptions about the fold tree, the number of residues in the pose is an explicit input. More...
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| void | protocols::medal::chunk_probabilities (const protocols::loops::Loops &chunks, Probabilities *p) |
| | Computes per-residue chunk probabilities. A linear voting scheme is used to bias sampling toward larger chunks. More...
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| void | protocols::medal::cutpoint_probabilities (core::Size const num_residues, const core::kinematics::FoldTree &tree, Probabilities *p) |
| | Computes per-residue cutpoint probabilities. Sampling is biased toward residues proximal to a cutpoint. More...
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| void | protocols::medal::end_bias_probabilities (const core::Size num_residues, Probabilities *p) |
| | Lower sampling probability near termini. More...
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| void | protocols::medal::invalidate_residues_spanning_cuts (const core::kinematics::FoldTree &tree, const core::Size fragment_len, Probabilities *probs) |
| | Zeroes out the probability of residues for which fragment insertion would cross cutpoint boundaries. More...
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| void | protocols::medal::as_set (protocols::loops::LoopsCOP loops, boost::unordered_set< core::Size > *s) |
| | Populates a hash table with the residues contained in loops. More...
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| void | protocols::medal::to_centroid (core::pose::Pose *pose) |
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