Fig. 2.

An illustration of the integrated HMM with array and WES data. $c_i$ indicates hidden states at position $i$; $y_{\mathrm{S}\mathrm{N}\mathrm{P}/\mathrm{W}\mathrm{E}\mathrm{S},i}$ indicates observation of normalized intensity score at position $i$; $b_{\mathrm{S}\mathrm{N}\mathrm{P}/\mathrm{W}\mathrm{E}\mathrm{S},i}$ indicates observation of BAF at position $i$. Specifically in hidden state $c_4$, since there is no variants BAF from WES, we assign 0