, including all inherited members.
| _isFlipped() const (defined in MyPointSet) | MyPointSet | [inline] |
| choosePoints(const vector< int > &containedPoints) (defined in MyPointSet) | MyPointSet | [virtual] |
| compareTTest(string name, const MyPointSet &other, MyNT &tstat, MyNT &pvalue) const | MyPointSet | |
| computeAverageExpressionValue(const set< string > &subset) | MyPointSet | |
| computeCoordinateDistribution(MyHistogram &histogram) const | MyPointSet | |
| computeCorrelations(string point1, string point2, vector< MyNT > &correlations, string method="Pearsons") const | MyPointSet | [virtual] |
| computeCorrelations(MyNT threshold, string id, bool absoluteValues=true, map< string, map< string, MyNT > > *pairs=NULL) | MyPointSet | [virtual] |
| computeCorrelationsHistogram(map< string, map< string, MyNT > > *pairs=NULL) const | MyPointSet | |
| computeEntropies(MyVerbosityLevel verbosity) (defined in MyPointSet) | MyPointSet | [virtual] |
| computeEntropy(int dim, MyVerbosityLevel verbosity) const (defined in MyPointSet) | MyPointSet | [virtual] |
| computeMean(string point) const | MyPointSet | [inline] |
| computeMean(string point, MyPoint &mean) const | MyPointSet | |
| computeMeanAndStandardDeviation(MyNT &mean, MyNT &stddev) | MyPointSet | |
| computeMeanAndVariance(string point, MyNT &mu, MyNT &var, unsigned int &numCoords) const | MyPointSet | |
| computeRandomisedCorrelationsHistogram(unsigned int numRandomisations, string outputFile) | MyPointSet | [virtual] |
| computeSignificantValues(MyNT pvalueThreshold, MyHistogram &histogram, MyNT &value) (defined in MyPointSet) | MyPointSet | |
| convertToRanks() | MyPointSet | |
| doClassNamesExist() const (defined in MyPointSet) | MyPointSet | [inline] |
| filter(const MyClusterParams ¶ms) (defined in MyPointSet) | MyPointSet | [virtual] |
| filter(MyNT maxDownRegulated, MyNT minUpRegulated) (defined in MyPointSet) | MyPointSet | |
| flip() (defined in MyPointSet) | MyPointSet | [virtual] |
| generate(int &index, bool forbidChosen=true) const (defined in MyPointSet) | MyPointSet | [virtual] |
| generate(int num, vector< int > &indices, bool forbidHidden=true, string classToUse="") const (defined in MyPointSet) | MyPointSet | [virtual] |
| getClasses(MyClassNamesType &names) (defined in MyPointSet) | MyPointSet | [inline] |
| getClassName(int i) const (defined in MyPointSet) | MyPointSet | |
| getDimCoords(int dim, vector< MyNT > &coords) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionCount(unsigned int i, MyNT value) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionHigh(int i) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionInfo() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionInfo(int i) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionLow(int i) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionMean(int i) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionNames(set< string > &names) const | MyPointSet | [inline, virtual] |
| getDimensionSigma(int i) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getDimensionValues(unsigned int i, vector< MyNT > &values) const (defined in MyPointSet) | MyPointSet | [virtual] |
| getGeneName(int i) const (defined in MyPointSet) | MyPointSet | |
| getInterval(const vector< int > &discIndices, unsigned int dim, MyNT &low, MyNT &high) const (defined in MyPointSet) | MyPointSet | [virtual] |
| getNumDimensions() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getNumGenes() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getNumNotChosen() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getNumNotHidden() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getNumPoints() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getNumSamples() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getPointIndex(string name) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| getPointNames(set< string > &names) const | MyPointSet | [inline, virtual] |
| getSample(unsigned int i) const (defined in MyPointSet) | MyPointSet | [virtual] |
| getSampleName(int i) const (defined in MyPointSet) | MyPointSet | |
| hide(const vector< int > &containedPoints, const vector< MyDimensionInterval > &intervals) (defined in MyPointSet) | MyPointSet | [virtual] |
| hidePoints(const vector< int > &containedPoints) (defined in MyPointSet) | MyPointSet | [virtual] |
| insert(const MyPoint &point) (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| isPoint(string name) const | MyPointSet | [inline, virtual] |
| MyCluster class | MyPointSet | [friend] |
| MyPointSet() (defined in MyPointSet) | MyPointSet | [inline] |
| MyPointSet(const MyPointSet ©) (defined in MyPointSet) | MyPointSet | [inline] |
| numInClass(string className) const (defined in MyPointSet) | MyPointSet | [inline] |
| operator=(const MyPointSet &rhs) (defined in MyPointSet) | MyPointSet | [inline] |
| operator[](int i) const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| operator[](int i) (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| print(string outfile) | MyPointSet | |
| print(ostream &ostr) | MyPointSet | |
| printCorrelations(MyNT threshold, string outputFile, bool absoluteValues=true, map< string, map< string, MyNT > > *pairs=NULL) | MyPointSet | [virtual] |
| printCorrelationsHistogram(string outputFile) const | MyPointSet | |
| randomise() | MyPointSet | [inline] |
| read(MyClusterParams ¶ms, unsigned int whichPointSet=0) (defined in MyPointSet) | MyPointSet | [virtual] |
| read(string infile, const MyAffyFileFormat &format=MyAffyFileFormat()) (defined in MyPointSet) | MyPointSet | [virtual] |
| readClasses(string fileName) (defined in MyPointSet) | MyPointSet | |
| setClasses(string className) (defined in MyPointSet) | MyPointSet | |
| setClasses(const MyClassesType &classes) (defined in MyPointSet) | MyPointSet | |
| size() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| splitByClass(vector< MyPointSet > &splitPointSets, map< string, unsigned int > &classToIndex) | MyPointSet | |
| standardise() (defined in MyPointSet) | MyPointSet | [inline] |
| standardise(MyNT m, MyNT s) (defined in MyPointSet) | MyPointSet | [inline] |
| storeRowNameTranslations(const map< string, set< string > > &rowNameAliases) (defined in MyPointSet) | MyPointSet | |
| suggestClass() const (defined in MyPointSet) | MyPointSet | [inline, virtual] |
| ~MyPointSet() (defined in MyPointSet) | MyPointSet | [inline, virtual] |
1.7.6.1
