5.3.1 Computation for each dataset

For each dataset compute the frequency of alterations by clicking on Tools $\rightarrow$FrAGL $\rightarrow$Compute (see Figure 5.4(a)). Then set the FrAGL parameters as follows (see Figure 5.4(b)):

1. click on Status (the alteration calling identified by the GLAD algorithm (Hupé et al., 2004) is used)
2. for the Minimum value of confidence click on Percent and set the value to $20$ (probe with a missing value percentage greater than $20$ are discarded from the analysis)

Figure 5.4: Frequency of alterations computation

[Tools menu - FrAGL] [FrAGL parameters]

Once this procedure has been performed for both Douglas et al. (2004) and Nakao et al. (2004) two new windows are displayed with the frequency of alteration (see Figure 5.5).

Figure 5.5: Frequency of alterations the Douglas et al. (2004) dataset.