Covariates data frame

Description

A data frame with 6 covariates in columns and 43 arrays in rows, describing the arrays of the expression dataset. See also expression, annotations

Usage

data(covariates)

Format

A data frame with 43 observations on the following 6 variables.

AfClass

a factor with levels F (Fat) L (Lean) NC (Intermediate) giving the abdominal fatness class

ArrayName

Identifying the arrays (character)

Mere

a factor with 8 levels giving the dam of the offsprings

Lot

a factor with 4 levels giving the hatch

Pds9s

a numeric vector giving the body weight

Af

a numeric vector giving the abdominal fatness, the experimental condition of main interest in this example

Source

UMR Genetique Animale - INRA/AGROCAMPUS OUEST - Rennes, France.

References

Blum Y., Le Mignon G., Lagarrigue S. and Causeur S. (2010) - A factor model to analyze heterogeneity in gene expression, BMC Bioinformatics, 11:368.

Le Mignon, G. and Desert, C. and Pitel, F. and Leroux, S. and Demeure, O. and Guernec, G. and Abasht, B. and Douaire, M. and Le Roy, P. and Lagarrigue S. (2009) - Using trancriptome profling to characterize QTL regions on chicken chromosome 5. BMC Genomics, 10:575.

Examples

data(covariates)
dim(covariates) 
summary(covariates)

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(FAMT)
Loading required package: mnormt
Loading required package: impute
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/FAMT/covariates.Rd_%03d_medium.png", width=480, height=480)
> ### Name: covariates
> ### Title: Covariates data frame
> ### Aliases: covariates
> ### Keywords: datasets
> 
> ### ** Examples
> 
> data(covariates)
> dim(covariates) 
[1] 43  6
> summary(covariates)
 AfClass   ArrayName        Mere    Lot         Pds9s            Af          
 F :18   F10    : 1   GMB05555:10   L2:16   Min.   :1994   Min.   :-25.5397  
 L :19   F11    : 1   GMB05625: 7   L3:11   1st Qu.:2284   1st Qu.: -8.0042  
 NC: 6   F12    : 1   GMB05562: 5   L4: 8   Median :2371   Median :  2.7166  
         F13    : 1   GMB05599: 5   L5: 8   Mean   :2370   Mean   :  0.2365  
         F14    : 1   GMB05554: 4           3rd Qu.:2474   3rd Qu.:  8.6037  
         F15    : 1   GMB05589: 4           Max.   :2618   Max.   : 18.1024  
         (Other):37   (Other) : 8                                            
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>