SMAPObservations {SMAP} | R Documentation |
A constructor for
SMAPObservations-class
objects.
SMAPObservations(value, chromosome, startPosition, endPosition, name=character(0), reporterId=as.character(1:length(value)))
value |
A vector of microarray intensity ratios (numeric). |
chromosome |
A vector of chromosome annotations (character). |
startPosition |
A vector of start positions (numeric). |
endPosition |
A vector of end positions (numeric). |
name |
The name of the observation set (character). |
reporterId |
A vector of observation identifiers, e.g., probe ids (character). |
The vectors value
, chromosome
, startPosition
,
endPosition
, and reporterId
must be of equal length.
An object of class
SMAPObservations-class
.
Robin Andersson, robin.andersson@lcb.uu.se
Andersson, R., Bruder, C. E. G., Piotrowski, A., Menzel, U., Nord, H., Sandgren, J., Hvidsten, T. R., Diaz de Stahl, T., Dumanski, J. P., Komorowski, J., A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling, submitted
smap
,
SMAPObservations-class
,
SMAPHMM-class
## Load Glioblastoma multiforme data data(GBM) observations <- SMAPObservations(value=as.numeric(GBM[,2]), chromosome=as.character(GBM[,3]), startPosition=as.numeric(GBM[,4]), endPosition=as.numeric(GBM[,5]), name="G24460", reporterId=as.character(GBM[,1])) ## plot observations plot(observations, ylim=c(0,2)) ## plot subset of observations (chromosome 9) ids <- which(chromosome(observations) == "9") plot(observations[ids])