Make a Sample Dataframe for use in Initializing a MANTA object

Description

The sample dataframe contains a row for each sample with a factor indicating grouping and library sizes.

Usage

makeSampleDF(counts, group=factor(colnames(counts)), lib.size=colSums(counts))

Arguments

Value

a sample dataframe

See Also

DGEList, manta, setLibrarySizes

Examples

cts.path <- system.file("extdata","PapaGO-BWA.counts-diatoms.tab", package="manta")
cts <- read.delim(cts.path)
sdf <- makeSampleDF(counts=cts)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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> library(manta)
Loading required package: edgeR
Loading required package: limma
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/manta/makeSampleDF.Rd_%03d_medium.png", width=480, height=480)
> ### Name: makeSampleDF
> ### Title: Make a Sample Dataframe for use in Initializing a MANTA object
> ### Aliases: makeSampleDF
> 
> ### ** Examples
> 
> cts.path <- system.file("extdata","PapaGO-BWA.counts-diatoms.tab", package="manta")
> cts <- read.delim(cts.path)
> sdf <- makeSampleDF(counts=cts)
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>