empiricalFDR.DESeq2: Simulation-Based False Discovery Rate in RNA-Seq

Auxiliary functions for the DESeq2 package to simulate read counts according to the null hypothesis (i.e., with empirical sample size factors, per-gene total counts and dispersions, but without effects of predictor variables) and to compute the empirical false discovery rate.

Author
Mikhail V. Matz
Date of publication
2015-05-27 08:55:36
Maintainer
Mikhail V. Matz <matz@utexas.edu>
License
GPL-3
Version
1.0.3

View on CRAN

Man pages

empiricalFDR
Computing the p-value cutoff to achieve a given FDR.
empiricalFDR.DESeq2-package
Simulation-Based False Discovery Rate in RNA-Seq
fdrBiCurve
Plots the numbers of null hypothesis rejections
fdrTable
Computes false discovery rates for a series of p-value...
simulateCounts
Simulating RNA-seq read counts

Files in this package

empiricalFDR.DESeq2
empiricalFDR.DESeq2/NAMESPACE
empiricalFDR.DESeq2/R
empiricalFDR.DESeq2/R/empiricalFDR.DESeq2-internal.R
empiricalFDR.DESeq2/R/fdrTable.R
empiricalFDR.DESeq2/R/empiricalFDR.R
empiricalFDR.DESeq2/R/fdrBiCurve.R
empiricalFDR.DESeq2/R/simulateCounts.R
empiricalFDR.DESeq2/MD5
empiricalFDR.DESeq2/DESCRIPTION
empiricalFDR.DESeq2/man
empiricalFDR.DESeq2/man/simulateCounts.Rd
empiricalFDR.DESeq2/man/empiricalFDR.DESeq2-package.Rd
empiricalFDR.DESeq2/man/empiricalFDR.Rd
empiricalFDR.DESeq2/man/fdrBiCurve.Rd
empiricalFDR.DESeq2/man/fdrTable.Rd