Figure 2.

Simulation design and patterns discovered by iASeq. (a) The true ASB patterns in simulation 1. Two patterns were simulated in addition to the background pattern. The two non-background patterns are shown. Each pattern has 4725 SNPs. Each row in the plot represents a SNP class, and each column represents a dataset. Black means skewed, and white means not skewed. (b) The BIC values for different class number K in simulation 1. The BIC achieves the minimum at K=2. (c) Patterns discovered by iASeq in simulation 1. The plot shows the estimated V and W when K=2. Each row corresponds to a class. Each column represents a dataset. The color in the cell (k,d) demonstrates the estimated SR or SN probability in class k and dataset d. From white to dark, the probability increases from 0 to 1. The numbers shown under Πare the estimated number of SNPs in each class (i.e., <a onClick="popup('http://www.biomedcentral.com/1471-2164/13/681/mathml/M25','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2164/13/681/mathml/M25">View MathML</a> the total number of SNPs). The numbers shown under aiare the number of SNPs identified for the corresponding class using the posterior probability Pr(ai=k|Xi,Ni,Π,V,W)>0.9 as cutoff. (d) The true ASB patterns in simulation 2. Four patterns were simulated in addition to the background pattern. The four non-background patterns are shown. Each pattern has 2362 SNPs. (e) The BIC values for different class number K in simulation 2. The BIC achieves the minimum at K=4. (f) The patterns discovered by iASeq in simulation 2.

Wei et al. BMC Genomics 2012 13:681   doi:10.1186/1471-2164-13-681
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