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Table 1 Mean estimate of theta estimators for 100x1MB regions for 25 samples

From: Calculation of Tajima’s D and other neutrality test statistics from low depth next-generation sequencing data

    Selection No selection  
Method θ w θ π θ FL θ w θ π θ FL
Known 649.8 567.1 745.1 930.0 923.5 939.0
ML 648.6 567.9 734.7 932.4 923.7 968.3
GC-hwe 10-6 341.7 372.1 72.2 541.3 640.3 99.9
GC-mLike 10-6 341.7 497.1 32.9 541.3 768.7 44.8
GC-hwe 10-3 556.1 434.7 583.5 784.8 712.4 680.6
GC-mLike 10-3 556.1 598.9 360.4 784.8 897.9 410.1
GC-hwe 10-5 1011.0 594.8 653.7 1244.4 874.1 752.8
GC-mLike 10-5 1011.0 831.8 420.4 1244.4 1131.6 471.8
  1. The genotype likelihoods are simulated with an error rate of 0.5% and an average depth of 2 ×.