
658 Statistics and Data Analysis for Microarrays Using R and Bioconductor
4LCX.CEL
4LFU.CEL
4LLS.CEL
5LCX.CEL
5LFU.CEL
5LLS.CEL
6LCX.CEL
6LFU.CEL
6LLS.CEL
7NLCX.CEL
7NLFU.CEL
7NLLS.CEL
8LCX.CEL
8LFU.CEL
8LLS.CEL
9PTLNLCX.CEL
9PTLNLFU.CEL
9PTLNLLS.CEL
−1.0 −0.5 0.0 0.5 1.0
RLE
4LCX.CEL
4LFU.CEL
4LLS.CEL
5LCX.CEL
5LFU.CEL
5LLS.CEL
6LCX.CEL
6LFU.CEL
6LLS.CEL
7NLCX.CEL
7NLFU.CEL
7NLLS.CEL
8LCX.CEL
8LFU.CEL
8LLS.CEL
9PTLNLCX.CEL
9PTLNLFU.CEL
9PTLNLLS.CEL
0.95 1.00 1.05 1.10
NUSE
FIGURE 19.11: RLE and NUSE plots based on PLM after excluding arrays
from samples 2 and 3: Here the PLM model is fitted after background ad-
justment and normalization. The left panel shows the RLE plot, in which