Table 3.

Sensitivity of the Test to Inaccuracies in the Marginal Mutation Probabilities

Mean # Mutations Per Tumor1	Clonality Signal	Mean # Matching Mutations	Frequency of <0.05
			Test Calculated Using
			True Probabilities2	Random Errors3	Rare Mutation Overestimation4
5	0.0	0.10	0.01	0.02	0.01
5	0.1	0.56	0.36	0.37	0.33
5	0.25	1.32	0.65	0.67	0.65
10	0.0	0.21	0.02	0.04	0.00
10	0.1	1.17	0.57	0.58	0.37
10	0.25	2.60	0.89	0.90	0.80
20	0.0	0.45	0.03	0.06	0.00
20	0.1	2.41	0.81	0.82	0.54
20	0.25	5.28	0.99	0.99	0.94

¹In all configurations the data are generated using the same set-ups as described in the footnotes to Table 1 with regard to the marginal probabilities of the mutations and the clonality signal.

²Here the test is computed by using the same marginal probabilities as were used in the data generation.

³For the purposes of calculating the test statistic and its reference distribution the marginal probabilities of the markers {p_i} were perturbed with random errors to $\{{\mathrm{p}}_{\mathrm{i}}^{*}\}$, using $\text{log}\{{\mathrm{p}}_{\mathrm{i}}^{*}/(1-{\mathrm{p}}_{\mathrm{i}}^{*})\}=\text{log}\{{\mathrm{p}}_{\mathrm{i}}/(1-{\mathrm{p}}_{\mathrm{i}})\}+{\mathrm{\epsilon }}_{\mathrm{i}}$, where ε_i is a random N(0,0.5) error term

⁴For the purposes of calculating the test statistic and its reference distribution the marginal probabilities of the common markers are assumed to be correct but the probabilities of the rare markers are overestimated by a factor of 10