RPpval: Visualize the outcome of a Rank product analysis

In KonradZych/phenotypes2genotypes: High-Throughput Generation of Genetic Markers and Maps from Molecular Phenotypes for Crosses Between Inbred Strains

Description

Visualize the outcome of a Rank product analysis, this function will print/plot p-values calculated by the find.diff.expressed function.

Usage

	showRPpval(population,markers=1:10)
	plotRPpval(population,thresholdRange=c(0.01,0.1,0.01))

Arguments

population	An object of class population. See create.population for details.
markers	Numbers of markers to be printed
thresholdRange	Specifies in which range threshold will be checked (start, stop, step).

Details

Those are two helper functions of find.diff.expressed. showRPpval is printing to the screen p-values for specified markers, while plotRPpval is showing how many markers will be selected using different thresholds.

Value

An object of class population, (see create.population for more details) with object of class RP saved into population$founders$RP.

Author(s)

Konrad Zych [e-mail], Danny Arends [e-mail] Maintainer: Konrad Zych [e-mail]

See Also

• RP - Perform rank product method to identify differentially expressed genes.

• find.diff.expressed - Select differentially expressed genes using Rank Product or student t-test analysis.

• generate.biomarkers - Creating genotypes from children phenotypes.

• showRPpval- Printing out p-values calculated by the find.diff.expressed function.

• plotRPpval - Plotting p-values calculated by the find.diff.expressed function.

Examples

	data(testPopulation)
	showRPpval(testPopulation)
	plotRPpval(testPopulation)

KonradZych/phenotypes2genotypes documentation built on May 30, 2019, 2:45 p.m.