ratiomatrix and datamatrix for demonstration of BCE().

Description

The datamatrix contains a set of biomarker measurements for a number of field samples.

The ratiomatrix contains biomarker data of a number of biological taxa. BCE() uses these matrices to estimate the taxonomical composition of the samples based on the provided taxa. For use with the function bce1(), they have to be transposed.

Usage

bceInput

Examples

##====================================
## Graphical representation of the example input data
palette(rainbow(12, s = 0.6, v = 0.75))

mp     <- apply(bceInput$Rat,MARGIN=2,max)
mp2    <- apply(bceInput$Dat,MARGIN=2,max)
pstars <- rbind(t(t(bceInput$Rat)/mp),t(t(bceInput$Dat)/mp2))

stars(pstars, len = 0.9, key.loc = c(7.2, -2),scale=FALSE,
      ncol=5,ylim=c(0,3),main = "bce Input: species + field samples", 
      draw.segments = TRUE, flip.labels=FALSE)

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)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(BCE)
Loading required package: FME
Loading required package: deSolve

Attaching package: 'deSolve'

The following object is masked from 'package:graphics':

    matplot

Loading required package: rootSolve
Loading required package: coda
Loading required package: limSolve
Loading required package: Matrix
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/BCE/bceInput.Rd_%03d_medium.png", width=480, height=480)
> ### Name: bceInput
> ### Title: ratiomatrix and datamatrix for demonstration of BCE().
> ### Aliases: bceInput
> ### Keywords: datasets
> 
> ### ** Examples
> 
> ##====================================
> ## Graphical representation of the example input data
> palette(rainbow(12, s = 0.6, v = 0.75))
> 
> mp     <- apply(bceInput$Rat,MARGIN=2,max)
> mp2    <- apply(bceInput$Dat,MARGIN=2,max)
> pstars <- rbind(t(t(bceInput$Rat)/mp),t(t(bceInput$Dat)/mp2))
> 
> stars(pstars, len = 0.9, key.loc = c(7.2, -2),scale=FALSE,
+       ncol=5,ylim=c(0,3),main = "bce Input: species + field samples", 
+       draw.segments = TRUE, flip.labels=FALSE)
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>