corba | R Documentation |
For each variable Pearson's correlation of the values before and after batch effect adjustment is calculated. Then the mean is taken over all these correlations.
corba(xba, x)
xba |
matrix. The covariate matrix after batch effect adjustment. observations in rows, variables in columns. |
x |
matrix. The covariate matrix before batch effect adjustment. observations in rows, variables in columns. |
Value of the metric
Roman Hornung
Lazar, C., Meganck, S., Taminau, J., Steenhoff, D., Coletta, A., Molter,C., Weiss-Solís, D. Y., Duque, R., Bersini, H., Nowé, A. (2012). Batch effect removal methods for microarray gene expression data integration: a survey. Briefings in Bioinformatics 14(4):469-490, <doi: 10.1093/bib/bbs037>.
data(autism) params <- ba(x=X, y=y, batch=batch, method = "combat") Xadj <- params$xadj corba(xba=Xadj, x=X)
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