Hi All

 

We have designed a 16 samples experiment. However, one sample only has
so far been amplified and hybridised to a mouse Illimina chip to see
whether or not there would be enough material to generate reliable
results from all the others not yet processed.

 

Looking at the lumi package, there isn’t much I could do with just one
sample. Are there QC methods that would enable us to say that the chip
actually produces reliable results, please? 

 

> summary(data, "QC")

Data dimension:  46628 genes x 1 samples 

 

Summary of Samples:

                        5-has a

mean                     5.3240

standard deviation       1.1740

detection rate(0.01)     0.2206

distance to sample mean  0.0000

 

 

With respect to Detection rate, what would be considered normal and
good? 

 

Thanks heaps

 

Yogi 

 



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