RankingSam {GeneSelector} | R Documentation |
A wrapper function to the samr
package.
RankingSam(x, y, type = c("unpaired", "paired", "onesample"), pvalues = TRUE, gene.names = NULL, ...)
x |
A |
y |
If |
type |
|
pvalues |
Should p-values be computed ? Default is |
gene.names |
An optional vector of gene names. |
... |
Further arguments to be passed to |
An object of class GeneRanking.
The computing time is relatively high, due to the fact that permutation statistics are generated.
Martin Slawski
Anne-Laure Boulesteix
Tusher, V.G., Tibshirani, R., and Chu, G. (2001).
Significance analysis of microarrays applied to the ionizing radiation
response. PNAS, 98, 5116-5121.
Schwender, H., Krause, A. and Ickstadt, K. (2003).
Comparison of the Empirical Bayes and the Significance
Analysis of Microarrays.
Technical Report, University of Dortmund.
RepeatRanking, RankingTstat, RankingFC, RankingWelchT, RankingWilcoxon, RankingBaldiLong, RankingFoxDimmic, RankingLimma, RankingEbam, RankingWilcEbam, RankingShrinkageT, RankingSoftthresholdT, RankingPermutation
### Load toy gene expression data data(toydata) ### class labels yy <- toydata[1,] ### gene expression xx <- toydata[-1,] ### run RankingSam sam <- RankingSam(xx, yy, type="unpaired")