src/seekweight.h

/*****************************************************************************
* This file is provided under the Creative Commons Attribution 3.0 license.
*
* You are free to share, copy, distribute, transmit, or adapt this work
* PROVIDED THAT you attribute the work to the authors listed below.
* For more information, please see the following web page:
* http://creativecommons.org/licenses/by/3.0/
*
* This file is a component of the Sleipnir library for functional genomics,
* authored by:
* Curtis Huttenhower (chuttenh@princeton.edu)
* Mark Schroeder
* Maria D. Chikina
* Olga G. Troyanskaya (ogt@princeton.edu, primary contact)
*
* If you use this library, the included executable tools, or any related
* code in your work, please cite the following publication:
* Curtis Huttenhower, Mark Schroeder, Maria D. Chikina, and
* Olga G. Troyanskaya.
* "The Sleipnir library for computational functional genomics"
*****************************************************************************/
#ifndef SEEKWEIGHT_H
#define SEEKWEIGHT_H

#include "seekbasic.h"
#include "seekreader.h"
#include "seekquery.h"
#include "seekevaluate.h"

namespace Sleipnir {

class CSeekWeighter{
public:

    /*cv_query must be present in sDataset */
    static bool LinearCombine(vector<utype> &rank,
        const vector<utype> &cv_query, CSeekDataset &sDataset,
        const utype &, const bool &);

    static bool CVWeighting(CSeekQuery &sQuery, CSeekDataset &sDataset,
        const float &rate, const float &percent_required, const bool &bsquareZ,
        vector<utype> *rrank, const CSeekQuery *goldStd = NULL);

    static bool OrderStatisticsRankAggregation(const utype&, const utype&,
        utype**, const vector<utype> &, vector<float>&, const utype&);
    static bool OrderStatisticsPreCompute();


    static bool OneGeneWeighting(CSeekQuery&, 
        CSeekDataset&, const float&, const float&, const bool&, 
        vector<utype>*, const CSeekQuery*);

    static bool AverageWeighting(CSeekQuery &sQuery, CSeekDataset &sDataset,
        const float &percent_required, const bool &bSquareZ, float &w);
};


}
#endif