Table 1 Comparisons of ancestral inferences using RABBIT, GAIN, and HAPPY
RABBIT
ProbabilitySimulated data setjointModelindepModeldepModelGAINHAPPY (diploid)HAPPY (haploid)
Wrongly assignedMAGIC-F50.1430.1430.935NA0.7790.949
MAGIC-F110.0960.1440.106NA0.4460.323
CC-F11-AA0.0270.0360.2090.0370.1960.243
CC-F22-AA0.0240.0380.0460.0320.1230.090
CC-F11-XX0.0130.0170.1850.0320.1600.208
CC-F22-XX0.0110.0190.0290.0270.0780.058
Wrongly calledMAGIC-F50.1050.1050.934NA0.2250.937
MAGIC-F110.0740.1210.085NA0.2000.129
CC-F11-AA0.0200.0280.2050.0200.0500.214
CC-F22-AA0.0180.0300.0400.0160.0510.050
CC-F11-XX0.0080.0120.1820.0140.0310.188
CC-F22-XX0.0080.0140.0260.0110.0270.032
Pedigree inconsistencyCC-F11-AA0.000750.0040000.0260
CC-F22-AA0.000170.0039000.0150
CC-F11-XX0.000310.0014000.0200
CC-F22-XX0.000170.0017000.0090