replicateCorrelations {clippda} | R Documentation |
This generic function computes intraclass correlations for duplicate peak data.
replicateCorrelations(Data, ...)
Data |
An object of |
... |
Some methods for this generic function may take additional, optional arguments. At present none do. |
consensus: |
consensus intraclass correlation. |
correlations: |
intraclass correlations for each peak. |
Stephen Nyangoma
Nyangoma SO, Ferreira JA, Collins SI, Altman DG, Johnson PJ, and Billingham LJ: Sample size calculations for planning clinical proteomic profiling studies using mass spectrometry. Bioinformatics (Submitted)
Smyth GK, et al.: Use of within-array replicate spots for assessing differential expression in microarray experiments. Bioinformatics 2005, 21, 2067 - 75
Smyth GK: Linear models and emperical Bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004, 3, 1, Article 3
data(liverdata) data(liver_pheno) OBJECT=new("aclinicalProteomicsData") OBJECT@rawSELDIdata=as.matrix(liverdata) OBJECT@covariates=c("tumor" , "sex") OBJECT@phenotypicData=as.matrix(liver_pheno) OBJECT@variableClass=c('numeric','factor','factor') OBJECT@no.peaks=53 replicateCorrelations(OBJECT)