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Recipe: gary Minima Finder v0.1
Created by GaryForbis 76 1427
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Name: gary Minima Finder v0.1
ID: 15811
Created on: Fri, 11/12/2010 - 13:57
Updated on: Fri, 11/12/2010 - 13:57
Description:

A blend of Walkin Rebuild and Wiggle Worst with focus on most negatively changes segments. Segment list is recalculated based upon sufficient change on current segment.



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Joined: 08/06/2010
Groups: Contenders
basic controls

I will be trying this routine as part of a post-alignment settle routine. The basic controls are:

minChange -- sets the minimum change before rebuilding the list of segment scores.
minChangeDelta -- sets a modifier for minChange. When a change greater than minChange is found divide minChange by this number. When a segment is tested but the effect is less than minChange multiply minChange by this number.
-- Then normal walkin rebuild controls less set to loop control.

I may not have tested sufficiently or verified my code so the change in minchange may not be happening quite right. By just doing the wiggle routine rather than attempting to do rebuild will walk from worst to best scoring segments as long as minChange is set to 1000 and maxLen is set to 1.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons