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OCplus (version 1.46.0)

Operating characteristics plus sample size and local fdr for microarray experiments

Description

This package allows to characterize the operating characteristics of a microarray experiment, i.e. the trade-off between false discovery rate and the power to detect truly regulated genes. The package includes tools both for planned experiments (for sample size assessment) and for already collected data (identification of differentially expressed genes).

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Version

Version

1.46.0

License

LGPL

Last Published

February 15th, 2017

Functions in OCplus (1.46.0)

FDR

Compute FDR for general scenarios
plot.fdr2d.result

Plotting the bivariate local false discovery results
plot.fdr1d.result

Plot univariate local false discovery output
TOC

Theoretical FDR and sensitivity as a function of cutoff level
fdr2d

Compute two-dimensional local false discovery rate
summary.fdr.result

Display functions for local fdr output
tstatistics

Compute multiple parallel t-statistics
samplesize

FDR as a function of sample size
EOC

Estimated or empirical FDR, sensitivity, etc as a function of cutoff level
DrawContourlines

Draw and label a set of pre-calculated isolines
fdr1d

Compute classical local false discovery rate
average.fdr

Average a two-dimensional local false discovery rate
plot.FDR.result

Plot the empirical FDR as a function of the cutoff level
smooth1d

Smoothing a vector of counts
OCshow

Show one ore several OC curves graphically
Undocumented functions

Undocumented functions
MAsim.smyth

Simulate two-sample microarray data
tMixture

Fit a mixture of t-distributions