I am analyzing NanoString transcriptome data. The design of my study is as follows:
Each subject has 1 measurement only (cell line), however 2 subjects have two measurements (cell lines). I have 21 samples in total that corresponds to 19 subjects and there are 2 types of cell lines. Basically, trying to identify differentially exp. genes between two cell lines. I was able to run
lmFit, Does negative corfit$consensus cause issues while fitting a model in limma results?
corfit <- duplicateCorrelation(data,design,block=Sample_metadata$`Subject ID`) corfit$consensus  -0.5054192