| deGenes2by2BootT {maigesPack} | R Documentation |
This function takes an object of class maiges and do
differential expression analysis for the genes onto dataset, comparing
only two samples by a bootstrap of t statistics method.
deGenes2by2BootT(data=NULL, sLabelID=names(data@Slabels)[1], sTypeComp=NULL,
doClust=TRUE, ...)
data |
object of class maiges. |
sLabelID |
character string giving the sample label ID to be used. |
sTypeComp |
list with character vectors specifying the two sample types to be compared. |
doClust |
logical indicating if the object generated from this analysis will be used for cluster analysis. Defaults to TRUE. |
... |
additional parameters for functions
t.test, wilcox.test or
bootstrapT. |
This function calculate t statistics and p-values by re-sampling of
the data using the function bootstrapT.
There is the option to do the t test directly, using the function
deGenes2by2Ttest, or to do the non-parametric Wilcox
test using the function deGenes2by2Wilcox.
The result of this function is an object of class
maigesDE if doClust if FALSE or of class
maigesDEcluster if it is TRUE.
Gustavo H. Esteves <gesteves@vision.ime.usp.br>
bootstrapT, deGenes2by2Ttest and deGenes2by2Wilcox.
## Loading the dataset data(gastro) ## Doing bootstrap from t statistic test fot 'Type' sample label, k=1000 ## specifies one thousand bootstraps gastro.boot = deGenes2by2BootT(gastro.summ, sLabelID="Type", k=1000) gastro.boot