Table 2 Squared nearest neighbor deviation measured spot by spot. Comparison of variability in background estimates for region-based methods as well as quantile and morphological filters. The same parameter settings as in Table 1 have been used. By measuring spot by spot the effect of the block structure in the morphological filtered image is reduced, cf. Table 3.
From: Microarray image analysis: background estimation using quantile and morphological filters
Method | Slide 1 | Slide 2 | Slide 3 | Slide 4 | ||||
|---|---|---|---|---|---|---|---|---|
| Â | green | red | green | red | green | red | green | red |
Fixed 18 | 16.05 | 7.69 | 17.79 | 3.98 | 30.25 | 2.69 | 75.40 | 4.64 |
GenePix Pro | 63.86 | 44.49 | 57.80 | 24.21 | 139.73 | 14.27 | 293.81 | 22.97 |
Fixed 35 | 5.66 | 3.57 | 6.80 | 1.53 | 12.35 | 0.95 | 33.98 | 1.54 |
γ B,{0.08} ζ b,7 | 3.93 | 2.82 | 4.98 | 0.98 | 9.12 | 0.68 | 26.12 | 1.01 |
morph.close.open | 19.31 | 7.10 | 20.19 | 3.22 | 38.55 | 3.25 | 84.54 | 5.38 |
morph.open | 25.91 | 3.45 | 21.33 | 1.37 | 48.30 | 1.70 | 103.60 | 2.81 |