pplr-package {pplr}R Documentation

Detecting differential gene expression by using within and between-chip variance

Description

This package is to detect differential gene expression given the estimated gene expression levels and uncertainties of these measurements from probe-level analysis models.

Details

Package: pplr
Type: Package
Version: 1.1.3
Date: 2006-3-30
License: GPL

For the use the package please refer to the vignettes.

Author(s)

Xuejun Liu, Marta Milo, Neil D. Lawrence, Magnus Rattray

Maintainer: Xuejun Liu <liux@cs.man.ac.uk>

References

Liu,X., Milo,M., Lawrence,N.D. and Rattray,M. (2005) A tractable probabilistic model for Affymetrix probe-level analysis across multiple chips, Bioinformatics, 21(18):3637-3644.

Liu,X., Milo,M., Lawrence,N.D. and Rattray,M. (2005) Probe-level variances improve accuracy in detecting differential gene expression, technical report available upon request.

See Also

Related package mmgmos

Examples

  data(exampleE)
  data(exampleStd)
  r<-bcomb(exampleE,exampleStd,replicates=c(1,1,1,2,2,2),method="map")
  p<-pplr(r,1,2)


[Package pplr version 1.1.4 Index]