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#ifndef __BRAIN_MODEL_SURFACE_METRIC_ANOVA_TWO_WAY_H__
#define __BRAIN_MODEL_SURFACE_METRIC_ANOVA_TWO_WAY_H__
/*LICENSE_START*/
/*
* Copyright 1995-2002 Washington University School of Medicine
*
* http://brainmap.wustl.edu
*
* This file is part of CARET.
*
* CARET is free software; you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation; either version 2 of the License, or
* (at your option) any later version.
*
* CARET is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with CARET; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*
*/
/*LICENSE_END*/
#include "BrainModelSurfaceMetricFindClustersBase.h"
class MetricFile;
/// class for performing a two-way anova on metric files
class BrainModelSurfaceMetricAnovaTwoWay : public BrainModelSurfaceMetricFindClustersBase
{
public:
/// anova model type
enum ANOVA_MODEL_TYPE {
/// invalid type
ANOVA_MODEL_TYPE_INVALID,
/// fixed effect
ANOVA_MODEL_TYPE_FIXED_EFFECT,
/// random effect
ANOVA_MODEL_TYPE_RANDOM_EFFECT,
/// mixed effect (A=fixed, B=random)
ANOVA_MODEL_TYPE_ROWS_FIXED_EFFECT_COLUMN_RANDOM_EFFECT
};
// constructor
BrainModelSurfaceMetricAnovaTwoWay(BrainSet* bs,
const ANOVA_MODEL_TYPE anovaModelTypeIn,
const int numberOfRowsIn,
const int numberOfColumnsIn,
const QString& fiducialCoordFileNameIn,
const QString& openTopoFileNameIn,
const QString& areaCorrectionShapeFileNameIn,
const QString& fMapFileNameIn,
const QString& shuffledFMapFileNameIn,
const QString& clustersPaintFileNameIn,
const QString& clustersMetricFileNameIn,
const QString& reportFileNameIn,
const int areaCorrectionShapeFileColumnIn,
const int iterationsIn,
const float positiveThreshIn,
const float pValueIn,
const bool doFMapDOFIn,
const bool doFMapPValueIn,
const int numberOfThreadsIn);
// destructor
~BrainModelSurfaceMetricAnovaTwoWay();
// set metric/shape file for a row and column
void setMetricShapeFileName(const int row,
const int column,
const QString& metricFileName) throw (BrainModelAlgorithmException);
protected:
// must be implemented by subclasses
void executeClusterSearch() throw (BrainModelAlgorithmException);
// perform an F-Test on a set of metric files
void performFTest(const std::vector<MetricFile*>& metricFiles,
MetricFile* outputMetricFile,
const int fStatisticColumn,
const int dofColumn,
const int pValueColumn) throw (BrainModelAlgorithmException);
// get the index into one dimensional array of files or names
int getFileIndex(const int rowNumber,
const int columnNumber) const;
/// type of ANOVA
ANOVA_MODEL_TYPE anovaModelType;
/// the input metric file names
std::vector<QString> inputMetricFileNames;
/// the input metric files
std::vector<MetricFile*> inputMetricFiles;
/// metric files that are output of shuffling
std::vector<MetricFile*> shuffledMetricFiles;
/// interations for generating shuffled F-Map file
int iterations;
/// number of rows of data
int numberOfRows;
/// number of columns of data
int numberOfColumns;
};
#endif // __BRAIN_MODEL_SURFACE_METRIC_ANOVA_TWO_WAY_H__
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