getParams.failsafe: Helper function for getParams

In leekgroup/derfinder: Differential expression analysis of RNA-seq data at base-pair resolution

Description

When numerical methods find.mean and find.sd fail, getParams.failsafe is used to calculate parameters of the distributions of t statistics originating from over- or underexpressed nucleotides.

Usage

getParams.failsafe(null.mean, null.sd)

Arguments

null.mean	Estimated mean of null distribution (usually from locfdrFit)
null.sd	Estimated standard deviation of null distribution (usually from locfdrFit)

Details

For experienced users/debugging only. Most users should use getParams directly.

Value

A list with elements

DEup.mean	estimated mean of overexpressed distribution, calculated as the 95th percentile of the estimated null distribution
DEup.sd	estimated standard deviation of overexpressed distribution, set to be equal to the estimated standard deviation of the null distribution
DEdown.mean	estimated mean of underexpressed distribution, calculated as the 5th percentile of the estimated null distribution
DEdown.sd	estimated standard deviation of underexpressed distribution, set to be equal to the estimated standard deviation of the null distribution

Author(s)

Alyssa Frazee

See Also

getParams

leekgroup/derfinder documentation built on May 20, 2019, 11:30 p.m.