Fisher Algorithm Performed on a set of non negative numbers and labels of size N. There must be two specific labels. Label 1 must be 1 and label 2 must be 2. There ...
Info Algorithm Performed on an ordered (ascending) set of numbers and labels of size N. There must be only 2 unique labels (Label 1 and label 2). Seperate the list ...
Kolmogorov Smirnov Algorithm Computes the difference of the distributions of two empirical observation sets. K S Statistic 1 %$N_1$% is the size of group 1 ...
Likelihood Ratio Algorithm Suppose that we have data from stratum 0 and stratum 1. The test statistic is computed as : %$Z = 2Nlog(\frac{T}{N}) 2\sum N_jlog(\frac ...
Log Rank and Wilcoxon Algorithm These tests are for comparison of two or more strata of survival data. Suppose that we have data from stratum 0 and stratum 1. Denote ...
SAM Algorithm The data is %$x_{ij}$%, i = 1, 2, ... p genes, j = 1, 2, ... n samples, and response data %$y_j$%, j = 1,2, ... n (%$y_j$% may be a vector). Generic ...
TTest Algorithm Performed on a set of non negative numbers and labels of size N. There must be two specific labels. Label 1 must be 1 and label 2 must be 2. There ...
WGA Algorithm WGA = \begin{displaymath} \frac{d_b}{k_1d_{1} k_2d_{2} \alpha} \end{displaymath} * description of letters * %$n_i$% is the total number of ...
Wilcoxon Algorithm Performed on a set of numbers and labels of size N. There must be two specific labels. Label 1 must be 1 and label 2 must be 2. There can also be ...
ClassBallGraphPanel Public Data Members * int tickMax – Max value of tick of scale, default is 0 * int tickMin – minimum value of tick of scale, default is ...
BallGraphSummary Public Data Member * ArrayList lines the container for the lines * string title title of the graph * string testLabel1 label of testing ...
ChartPanel Public Methods * saveImage(String imgName) saves image of the chart (as a PNG file) to the given image name * setDimensions(float top, bottom, ...
CombinationManager Public Methods * SetBases(ArrayList of int) Sets the sizes of the bases. * Arraylist GetCombination(int) Returns the 0 base indices that ...
CriteriaManagerPanel Public Methods * loadCM(CriteriaManager, ArrayList, bool) Takes the CriteriaManager to load, a list of score names, and whether or not the ...
CriteriaSet Public Methods * Property Pass * Property NumPass The number of rows that passed the evaluation. If IgnoreNumPass then don't count. * SetColumnValue ...
CutoffManager Parent: CriteriaManager Public Methods * CutoffManager(CutoffManager) The copy constructor. * Add(string, string, double) Adds a score name ...
DataContainer Public Methods * DataContainer(DataContainer) Copy constructer. * AddColumn(string) Appends a new column of data, sets the name, and returns ...
DataGrouping Public Methods * DataGrouping(DataGrouping) Copy constructor. * Add(string, string) Adds a Column by name and sets group descriptor (defaults ...
DataGroupingPanel Public Methods * loadDG(DataSetInfo, DataGrouping, bool, bool) Takes the data information, the grouping to load, and whether the grouping is ...
DataSet Parent: DataContainer, Interface: IDataSet Public Methods * DataSet(DataSet) Copy Constructor overload that handles the name list. * SetDataPoint ...
DataSetPanel Public Methods * LoadDataSetPanel(DataSetInfo) loads the DataSet contained within the DataSetInfo object. If an InformationSet has also been assigned ...
DistancePanel Public Methods * LoadDistancePanel(TreeView) Loads the control with the CriteriaManagers, training groups, testing data, and testing groups for ...
DistanceReport Static Methods * WriteMissedColumn(ArrayList, string, bool, double) Will first filter distanceResults for runs where overall percent correct ...
DistanceResult Public Members * FilteredScores List of ids, numPass and the modifiers. * CriteriaSet criteria * DistanceOutput train * DistanceOutput ...
Expression Public Methods * Expression(string) Creation constructor. Sets function to the passed string, checks the validity of the function and converts to ...
FilteredScore Parent: Score Public Methods * FilteredScore(Score, CriteriaSet) Filters a score according to the criteria set. Creates the numPass column. ...
InformationSet Parent: DataContainer Public * SetDataPoint(int, int, string) Set the data at that point. * GetDataPoint(int, int) Gets the data at that ...
MissedChart Public Methods * MissedChart(MissedValues) creates a new missed chart to visualize the given object (can be null) Properties * InfoSet The ...
MissedValues Note: This class's structure is dependent entirely on DistanceReport.WriteMissedColumn() function Public Members * highlightRuns Arraylist of highlighted ...
Network Public Methods * Network(IPAddress, int) Constructor for starting a connection. * Network(string, int) Constructor for starting a connection. ...
PartitionedDataSet Public Methods * PartitionedDataSet(string) Constructor that takes the path to the DataSet. * PartitionedDataSet(string, int) Constructor ...
Kappa Value and Agreement Rate algorithms * 1. For each gene/feature, convert their are values to binary * new value(proteinomic data) = 1 if old value is ...
Rfunctions Public Methods * Average(ArrayList) Returns the mean. * StDev(ArrayList, double) Returns the standard deviation. * Var(ArrayList) Returns ...
ScorePanel Public Methods * LoadScore(Score, DataSet, string) * loads the given score, appending the actual row names from the given DataSet to the rowIDs ...
Summary Public Methods * ScoreSummary(ArrayList) Returns an InformationSet that summarizes all of the Scores given. * ScoreSummary(Score, ...) ScoreSummary ...
SummaryPanel Public Methods * SummaryPanel() Default constructor * SummaryPanel(SummaryPercentages) create a new Summary panel with the given percentages ...
SummaryPercentages Public Members * ArrayList Grp1 Grp2 Pcts Train Test Percentages * ArrayList Train Test Pcts Percentages for training or testing ...
ThreadPool Public Methods ThreadManager(int, WorkObject ) Remarks * Accepts a set of workobjects and does the work with the number of threads passed. This ...
TopNManager Parent: CriteriaManager Public Members * TopNManager(TopNManager) The copy constructor. * Add(string, string, double) Adds a score name, operator ...
WorkObject Public Members * int workObjNum workObject id number. Public Methods * DoWork() the function to run distance Remarks Generic work object ...