powerAnalyst: Power Analysis

In wenbostar/metaX: A flexible and comprehensive software for processing omics data.

Power Analysis

Description

Power Analysis

Usage

powerAnalyst(para, group, valueID = "value", log = TRUE,
  maxInd = 1000, fdr = 0.1, showPlot = FALSE)

Arguments

para	An metaXpara object
group	A vector of sample names
valueID	The column name used
log	A logical indicating whether transform the data with log2
maxInd	max sample number
fdr	The FDR threshold
showPlot	Whether or not to print the figure to screen

Value

An value

Author(s)

Bo Wen [e-mail]

Examples

## Not run:  
library(reshape2)
library(dplyr)
a <- read.csv("http://www.metaboanalyst.ca/MetaboAnalyst/resources/data/power_example.csv")
peaksData <- melt(a,id.vars = c("Diet","Sample"),
    value.name = "value",variable.name = "ID")
peaksData <- dplyr::rename(peaksData,class=Diet,sample=Sample)
para <- new("metaXpara")
peaksData(para) <- peaksData
para <- missingValueImpute(para)
para <- metaX::normalize(para)
para <- transformation(para,valueID = "value")
para <- preProcess(para,scale = "pareto",valueID="value")
powerAnalyst(para,group=c("case","control"),log=FALSE,maxInd=200)

## End(Not run)

wenbostar/metaX documentation built on July 4, 2023, 7:50 p.m.