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).

Author | Yudi Pawitan <Yudi.Pawitan@ki.se> and Alexander Ploner <Alexander.Ploner@ki.se> |

Date of publication | None |

Maintainer | Alexander Ploner <Alexander.Ploner@ki.se> |

License | LGPL |

Version | 1.48.2 |

**average.fdr:** Average a two-dimensional local false discovery rate

**DrawContourlines:** Draw and label a set of pre-calculated isolines

**EOC:** Estimated or empirical FDR, sensitivity, etc as a function of...

**FDR:** Compute FDR for general scenarios

**fdr1d:** Compute classical local false discovery rate

**fdr2d:** Compute two-dimensional local false discovery rate

**MAsim.smyth:** Simulate two-sample microarray data

**OCshow:** Show one ore several OC curves graphically

**plot.fdr1d.result:** Plot univariate local false discovery output

**plot.fdr2d.result:** Plotting the bivariate local false discovery results

**plot.FDR.result:** Plot the empirical FDR as a function of the cutoff level

**samplesize:** FDR as a function of sample size

**smooth1d:** Smoothing a vector of counts

**summary.fdr.result:** Display functions for local fdr output

**tMixture:** Fit a mixture of t-distributions

**TOC:** Theoretical FDR and sensitivity as a function of cutoff level

**tstatistics:** Compute multiple parallel t-statistics

**Undocumented:** Undocumented functions

OCplus/DESCRIPTION

OCplus/NAMESPACE

OCplus/R

OCplus/R/CDF.R
OCplus/R/EOC.R
OCplus/R/FDR.R
OCplus/R/OCshow.R
OCplus/R/Simulations.R
OCplus/R/TOC.R
OCplus/R/localfdr.R
OCplus/R/localfdr1d.R
OCplus/R/localfdr2d.R
OCplus/R/pdf.R
OCplus/R/samplesize.R
OCplus/R/tMixture.R
OCplus/build

OCplus/build/vignette.rds

OCplus/inst

OCplus/inst/doc

OCplus/inst/doc/OCplus.R

OCplus/inst/doc/OCplus.Rnw

OCplus/inst/doc/OCplus.pdf

OCplus/man

OCplus/man/DrawContourlines.Rd
OCplus/man/EOC.Rd
OCplus/man/FDR.Rd
OCplus/man/MAsim.smyth.Rd
OCplus/man/OCshow.Rd
OCplus/man/TOC.Rd
OCplus/man/Undocumented.Rd
OCplus/man/average.fdr.Rd
OCplus/man/fdr1d.Rd
OCplus/man/fdr2d.Rd
OCplus/man/plot.FDR.result.Rd
OCplus/man/plot.fdr1d.result.Rd
OCplus/man/plot.fdr2d.result.Rd
OCplus/man/samplesize.Rd
OCplus/man/smooth1d.Rd
OCplus/man/summary.fdr.result.Rd
OCplus/man/tMixture.Rd
OCplus/man/tstatistics.Rd
OCplus/vignettes

OCplus/vignettes/OCplus.Rnw

OCplus/vignettes/OCplus.bib

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.