Hi: I have a large dataset mydata, of 1000 rows and 1000 columns. The rows have gene names and columns have condition names (cond1, cond2, cond3, etc).
mydata<- read.table(file="c:/file1.mtx", header=TRUE, sep="") I applied PCA as follows: data_after_pca<- prcomp(mydata, retx=TRUE, center=TRUE, scale.=TRUE); Now i get 1000 PCs and i choose first three PCs and make a new data frame new_data_frame<- cbind(data_after_pca$x[,1], data_after_pca$x[,2], data_after_pca$x[,3]); After the PCA, in the new_data_frame, i loose the previous cond1, cond2, cond3 labels, and instead have PC1, PC2, PC3 as column names. My question is, is there any way I can map the PC1, PC2, PC3 to the original conditions, so that i can still have a reference to original condition labels after PCA? Thanks: deb ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
