permute: Calculating all possible permutations of a vector
In LPE: Methods for analyzing microarray data using Local Pooled Error (LPE) method

Description Usage Arguments Details Value Author(s) References See Also Examples

Given a vector, all possible combinations of vector are obtained

1	permute(a)

`a`	a is any numeric vector.

Used in am.trans. Does all permutations for columns within an experimental condition so that A and M can be calculated for all permutations of chips within a treatment.

A vector containing the possible combinations.

Nitin Jainnitin.jain@pfizer.com

J.K. Lee and M.O.Connell(2003). An S-Plus library for the analysis of differential expression. In The Analysis of Gene Expression Data: Methods and Software. Edited by G. Parmigiani, ES Garrett, RA Irizarry ad SL Zegar. Springer, NewYork.

Jain et. al. (2003) Local pooled error test for identifying differentially expressed genes with a small number of replicated microarrays, Bioinformatics, 1945-1951.

Jain et. al. (2005) Rank-invariant resampling based estimation of false discovery rate for analysis of small sample microarray data, BMC Bioinformatics, Vol 6, 187.

lpe

  # Loading LPE library
  library(LPE)
  
  # A test vector
  permute(1:3)  
  
 # Returns a 2 by 3 matrix 
 #       [,1] [,2] [,3]
 #  [1,]   2    3    1
 #  [2,]   3    1    2