getLabels {maigesPack} | R Documentation |
Generic function getLabels
to extract labels given an
ID to genes or samples.
getLabels(obj, labelID=NULL, sLabel=TRUE) ## Default S3 method: getLabels(obj=NULL, labelID=NULL, sLabel=TRUE) ## S3 method for class 'maigesDE': getLabels(obj=NULL, labelID=NULL, sLabel=TRUE) ## S3 method for class 'maigesDEcluster': getLabels(obj=NULL, labelID=NULL, sLabel=TRUE) ## S3 method for class 'RGList': getLabels(obj=NULL, labelID=NULL, sLabel=TRUE) ## S3 method for class 'MAList': getLabels(obj=NULL, labelID=NULL, sLabel=TRUE) ## S3 method for class 'marrayRaw': getLabels(obj=NULL, labelID=NULL, sLabel=TRUE) ## S3 method for class 'marrayNorm': getLabels(obj=NULL, labelID=NULL, sLabel=TRUE)
obj |
object to look for labels. Methods defined for classes
maigesRaw , maiges ,
maigesDE , maigesDEcluster , RGList ,
MAList , marrayRaw and
marrayNorm . |
labelID |
character string with label name to be searched. |
sLabel |
logical indicating search in the sample labels, defaults to TRUE. If FALSE search is done for gene labels. |
The name of gene labels are done by the names of the slot Glabels
in objects of classes maigesRaw
or
maiges
, the slot GeneInfo
in objects of classes
maigesDE
or maigesDEcluster
, the slot
genes
in objects of classes RGList
or
MAList
and the slot maGnames@maInfo
in
objects of classes marrayRaw
or
marrayNorm
.
Equivalently, the name of sample labels are done by the names of the
slots Slabels
, SampleInfo
, targets
and maTargets@maInfo
.
Gustavo H. Esteves <gesteves@vision.ime.usp.br>
## Loading dataset data(gastro) ## Getting the 'Tissue' label for samples in maigesRaw class object getLabels(gastro.raw, "Tissue", sLabel=TRUE) ## Getting the 'Type' label for samples in maigesNorm class object getLabels(gastro.summ, "Type", sLabel=TRUE) ## Getting the 'GeneName' label for genes (spots) in maigesRaw class object getLabels(gastro.raw, "GeneName", sLabel=FALSE) ## Getting the 'Annot' label for samples in maigesNorm class object getLabels(gastro.summ, "Annot", sLabel=FALSE)