Package ubic.basecode.math

Class Summary

Class	Description
Constants	Used in some ports of statistical code.
CorrelationStats	Statistical evaluation and transformation tools for correlations.
DescriptiveWithMissing	Mathematical functions for statistics that allow missing values without scotching the calculations.
Distance	Alternative distance and similarity metrics for vectors.
KruskalWallis	Perform a Kruskal-Wallis test.
KSTest	Class to perform the Kolmogorov-Smirnov test.
MathUtil
MatrixNormalizer<R,C>
MatrixRowStats	Convenience functions for getting row statistics from matrices.
MatrixStats
MultipleTestCorrection	Methods for p-value correction of sets of hypothesis tests.
PrecisionRecall	Compute area under precision recall
RandomChooser	Fill arrays with random values
Rank	Calculate rank statistics for arrays.
ROC	Functions for calculating Receiver operator characteristics.
Smooth	Methods for moving averages, loess
SpecFunc	Assorted special functions, primarily concerning probability distributions.
Stats	Miscellaneous functions used for statistical analysis.
StringDistance
Wilcoxon	Implements methods from supplementary file I of "Comparing functional annotation analyses with Catmap", Thomas Breslin, Patrik Ed�n and Morten Krogh, BMC Bioinformatics 2004, 5:193 doi:10.1186/1471-2105-5-193 Note that in the Catmap code, zero-based ranks are used, but these are converted to one-based before computation of pvalues.