Table 1 Default values for the parameters used in the program
From: Harshlight: a "corrective make-up" program for microarray chips
Defects | Parameter | Value |
|---|---|---|
Extended | Radius of the median filter | 10 pixels |
Threshold for the proportion of variance explained by the Background | 30% | |
Compact | Quantile for the definition of outliers | 5th, two tails |
Minimum size of clusters | 15 pixels | |
Connectivity definition | 8-neighbours | |
Probability value | 0.01 | |
Diffuse | Threshold for bright defects | 40% more than original value |
Threshold for dark defects | 35% more than original value | |
p-value threshold for binomial test. | 0.001 | |
Radius of sliding window | 10 pixels | |
Connectivity definition | 8-neighbours | |
Minimum size of clusters | 3π*diff. radius |