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- ./qpAdm: parameter file: par2.ns
- ### THE INPUT PARAMETERS
- ##PARAMETER NAME: VALUE
- genotypename: test.geno
- snpname: test.snp
- indivname: test.ind
- popright: rightpops
- popleft: leftpops
- ## qpAdm version: 810
- seed: 1798560915
- packed geno read OK
- end of inpack
- left pops:
- Iran_Seh_Gabi_C
- Ganj_Dareh_N
- Levant_N
- Anatolia_N.SG
- right pops:
- Ju_hoan_North.DG
- ESN.SG
- Kenya_Pastoral_Neolithic
- Morocco_Iberomaurusian
- AHG
- Anatolia_N
- WHG
- Russia_EHG
- Yana_UP
- Iran_N
- CHB.SG
- ONG.SG
- Papuan
- Russia_ANE
- Kazakhstan_Botai
- 0 Iran_Seh_Gabi_C 5
- 1 Ganj_Dareh_N 5
- 2 Levant_N 8
- 3 Anatolia_N.SG 2
- 4 Ju_hoan_North.DG 5
- 5 ESN.SG 10
- 6 Kenya_Pastoral_Neolithic 11
- 7 Morocco_Iberomaurusian 6
- 8 AHG 1
- 9 Anatolia_N 23
- 10 WHG 8
- 11 Russia_EHG 5
- 12 Yana_UP 2
- 13 Iran_N 4
- 14 CHB.SG 10
- 15 ONG.SG 6
- 16 Papuan 29
- 17 Russia_ANE 3
- 18 Kazakhstan_Botai 3
- jackknife block size: 0.050
- snps: 1144722 indivs: 146
- number of blocks for block jackknife: 713
- ## ncols: 1144722
- coverage: Iran_Seh_Gabi_C 1013946
- coverage: Ganj_Dareh_N 1014793
- coverage: Levant_N 852557
- coverage: Anatolia_N.SG 1132566
- coverage: Ju_hoan_North.DG 1135379
- coverage: ESN.SG 1135336
- coverage: Kenya_Pastoral_Neolithic 1074590
- coverage: Morocco_Iberomaurusian 1087735
- coverage: AHG 802393
- coverage: Anatolia_N 1122108
- coverage: WHG 1141804
- coverage: Russia_EHG 1119481
- coverage: Yana_UP 1135018
- coverage: Iran_N 1134606
- coverage: CHB.SG 1135305
- coverage: ONG.SG 1128498
- coverage: Papuan 1115093
- coverage: Russia_ANE 882725
- coverage: Kazakhstan_Botai 1134873
- dof (jackknife): 631.645
- numsnps used: 623663
- codimension 1
- f4info:
- f4rank: 2 dof: 12 chisq: 14.521 tail: 0.26866397 dofdiff: 14 chisqdiff: -14.521 taildiff: 1
- B:
- scale 1.000 1.000
- ESN.SG -0.008 0.011
- Kenya_Pastoral_Neolithic 0.626 -0.306
- Morocco_Iberomaurusian 1.144 -0.942
- AHG 1.497 0.333
- Anatolia_N 1.911 1.899
- WHG 1.086 1.003
- Russia_EHG 0.187 1.177
- Yana_UP 0.284 0.961
- Iran_N -2.131 1.170
- CHB.SG -0.274 0.631
- ONG.SG -0.282 1.203
- Papuan -0.331 0.601
- Russia_ANE -0.438 1.078
- Kazakhstan_Botai -0.337 1.118
- A:
- scale 538.839 1552.990
- Ganj_Dareh_N -0.821 -0.246
- Levant_N 1.026 -1.342
- Anatolia_N.SG 1.129 1.068
- full rank
- f4info:
- f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 12 chisqdiff: 14.521 taildiff: 0.26866397
- B:
- scale 1.000 1.000 1.000
- ESN.SG -0.013 0.018 -0.408
- Kenya_Pastoral_Neolithic 0.625 -0.238 2.351
- Morocco_Iberomaurusian 1.158 -0.826 0.878
- AHG 1.484 0.431 -1.215
- Anatolia_N 1.860 2.016 -1.074
- WHG 1.053 1.060 -0.745
- Russia_EHG 0.157 1.196 -0.007
- Yana_UP 0.252 0.979 0.165
- Iran_N -2.177 1.022 -0.528
- CHB.SG -0.299 0.635 1.627
- ONG.SG -0.323 1.176 -0.122
- Papuan -0.358 0.586 -0.099
- Russia_ANE -0.461 1.059 0.948
- Kazakhstan_Botai -0.364 1.097 -0.692
- A:
- scale 541.270 1476.881 9957.288
- Ganj_Dareh_N -0.821 -0.507 -1.292
- Levant_N 1.059 -1.355 -0.713
- Anatolia_N.SG 1.098 0.952 -0.906
- best coefficients: 0.572 0.131 0.297
- Jackknife mean: 0.571968785 0.131214915 0.296816300
- std. errors: 0.013 0.036 0.032
- error covariance (* 1000000)
- 173 -213 39
- -213 1268 -1055
- 39 -1055 1016
- summ: Iran_Seh_Gabi_C 3 0.268664 0.572 0.131 0.297 173 -213 39 1268 -1055 1016
- fixed pat wt dof chisq tail prob
- 000 0 12 14.521 0.268664 0.572 0.131 0.297
- 001 1 13 104.426 2.29134e-16 0.564 0.436 0.000
- 010 1 13 25.980 0.0171086 0.594 0.000 0.406
- 100 1 13 445.139 0 0.000 5.821 -4.821 infeasible
- 011 2 14 750.884 0 1.000 -0.000 0.000
- 101 2 14 1479.166 0 0.000 1.000 0.000
- 110 2 14 1441.442 0 0.000 0.000 1.000
- best pat: 000 0.268664 - -
- best pat: 010 0.0171086 chi(nested): 11.458 p-value for nested model: 0.00071177
- best pat: 011 3.50305e-151 chi(nested): 724.905 p-value for nested model: 1.15009e-159
- coeffs: 0.572 0.131 0.297
- ## dscore:: f_4(Base, Fit, Rbase, right2)
- ## genstat:: f_4(Base, Fit, right1, right2)
- details: Ganj_Dareh_N ESN.SG 0.000011 0.078050
- details: Levant_N ESN.SG -0.000082 -0.601765
- details: Anatolia_N.SG ESN.SG 0.000000 0.001435
- dscore: ESN.SG f4: -0.000004 Z: -0.039571
- details: Ganj_Dareh_N Kenya_Pastoral_Neolithic -0.001181 -7.080669
- details: Levant_N Kenya_Pastoral_Neolithic 0.001209 6.956403
- details: Anatolia_N.SG Kenya_Pastoral_Neolithic 0.000936 5.194713
- dscore: Kenya_Pastoral_Neolithic f4: -0.000239 Z: -1.763855
- details: Ganj_Dareh_N Morocco_Iberomaurusian -0.001687 -7.229753
- details: Levant_N Morocco_Iberomaurusian 0.002849 11.538572
- details: Anatolia_N.SG Morocco_Iberomaurusian 0.001725 6.560158
- dscore: Morocco_Iberomaurusian f4: -0.000079 Z: -0.413781
- details: Ganj_Dareh_N AHG -0.002167 -7.369528
- details: Levant_N AHG 0.002560 8.552271
- details: Anatolia_N.SG AHG 0.003569 11.806591
- dscore: AHG f4: 0.000156 Z: 0.674009
- details: Ganj_Dareh_N Anatolia_N -0.003396 -15.412480
- details: Levant_N Anatolia_N 0.001785 8.073866
- details: Anatolia_N.SG Anatolia_N 0.005211 21.752781
- dscore: Anatolia_N f4: -0.000162 Z: -0.928785
- details: Ganj_Dareh_N WHG -0.001843 -6.501873
- details: Levant_N WHG 0.001055 3.743233
- details: Anatolia_N.SG WHG 0.003030 9.666006
- dscore: WHG f4: -0.000017 Z: -0.072465
- details: Ganj_Dareh_N Russia_EHG -0.000677 -2.542811
- details: Levant_N Russia_EHG -0.000880 -3.342668
- details: Anatolia_N.SG Russia_EHG 0.001200 4.159491
- dscore: Russia_EHG f4: -0.000147 Z: -0.688688
- details: Ganj_Dareh_N Yana_UP -0.000829 -2.881278
- details: Levant_N Yana_UP -0.000526 -1.924519
- details: Anatolia_N.SG Yana_UP 0.001166 3.948542
- dscore: Yana_UP f4: -0.000198 Z: -0.848259
- details: Ganj_Dareh_N Iran_N 0.003029 11.901218
- details: Levant_N Iran_N -0.005235 -21.114190
- details: Anatolia_N.SG Iran_N -0.003654 -13.913553
- dscore: Iran_N f4: -0.000039 Z: -0.191659
- details: Ganj_Dareh_N CHB.SG -0.000045 -0.191518
- details: Levant_N CHB.SG -0.001382 -6.004673
- details: Anatolia_N.SG CHB.SG -0.000311 -1.228086
- dscore: CHB.SG f4: -0.000300 Z: -1.573388
- details: Ganj_Dareh_N ONG.SG 0.000019 0.071499
- details: Levant_N ONG.SG -0.001792 -7.021705
- details: Anatolia_N.SG ONG.SG 0.000117 0.421977
- dscore: ONG.SG f4: -0.000190 Z: -0.888894
- details: Ganj_Dareh_N Papuan 0.000282 1.146298
- details: Levant_N Papuan -0.001349 -5.695920
- details: Anatolia_N.SG Papuan -0.000336 -1.220892
- dscore: Papuan f4: -0.000115 Z: -0.578458
- details: Ganj_Dareh_N Russia_ANE 0.000075 0.231961
- details: Levant_N Russia_ANE -0.002087 -7.076216
- details: Anatolia_N.SG Russia_ANE -0.000353 -1.058762
- dscore: Russia_ANE f4: -0.000336 Z: -1.337437
- details: Ganj_Dareh_N Kazakhstan_Botai 0.000189 0.696489
- details: Levant_N Kazakhstan_Botai -0.001790 -6.935739
- details: Anatolia_N.SG Kazakhstan_Botai 0.000118 0.414861
- dscore: Kazakhstan_Botai f4: -0.000092 Z: -0.428349
- gendstat: Ju_hoan_North.DG ESN.SG -0.040
- gendstat: Ju_hoan_North.DG Kenya_Pastoral_Neolithic -1.764
- gendstat: Ju_hoan_North.DG Morocco_Iberomaurusian -0.414
- gendstat: Ju_hoan_North.DG AHG 0.674
- gendstat: Ju_hoan_North.DG Anatolia_N -0.929
- gendstat: Ju_hoan_North.DG WHG -0.072
- gendstat: Ju_hoan_North.DG Russia_EHG -0.689
- gendstat: Ju_hoan_North.DG Yana_UP -0.848
- gendstat: Ju_hoan_North.DG Iran_N -0.192
- gendstat: Ju_hoan_North.DG CHB.SG -1.573
- gendstat: Ju_hoan_North.DG ONG.SG -0.889
- gendstat: Ju_hoan_North.DG Papuan -0.578
- gendstat: Ju_hoan_North.DG Russia_ANE -1.337
- gendstat: Ju_hoan_North.DG Kazakhstan_Botai -0.428
- gendstat: ESN.SG Kenya_Pastoral_Neolithic -2.027
- gendstat: ESN.SG Morocco_Iberomaurusian -0.425
- gendstat: ESN.SG AHG 0.723
- gendstat: ESN.SG Anatolia_N -0.965
- gendstat: ESN.SG WHG -0.056
- gendstat: ESN.SG Russia_EHG -0.688
- gendstat: ESN.SG Yana_UP -0.865
- gendstat: ESN.SG Iran_N -0.179
- gendstat: ESN.SG CHB.SG -1.630
- gendstat: ESN.SG ONG.SG -0.936
- gendstat: ESN.SG Papuan -0.585
- gendstat: ESN.SG Russia_ANE -1.339
- gendstat: ESN.SG Kazakhstan_Botai -0.419
- gendstat: Kenya_Pastoral_Neolithic Morocco_Iberomaurusian 0.973
- gendstat: Kenya_Pastoral_Neolithic AHG 1.942
- gendstat: Kenya_Pastoral_Neolithic Anatolia_N 0.572
- gendstat: Kenya_Pastoral_Neolithic WHG 1.079
- gendstat: Kenya_Pastoral_Neolithic Russia_EHG 0.466
- gendstat: Kenya_Pastoral_Neolithic Yana_UP 0.193
- gendstat: Kenya_Pastoral_Neolithic Iran_N 1.032
- gendstat: Kenya_Pastoral_Neolithic CHB.SG -0.349
- gendstat: Kenya_Pastoral_Neolithic ONG.SG 0.248
- gendstat: Kenya_Pastoral_Neolithic Papuan 0.667
- gendstat: Kenya_Pastoral_Neolithic Russia_ANE -0.406
- gendstat: Kenya_Pastoral_Neolithic Kazakhstan_Botai 0.762
- gendstat: Morocco_Iberomaurusian AHG 1.024
- gendstat: Morocco_Iberomaurusian Anatolia_N -0.486
- gendstat: Morocco_Iberomaurusian WHG 0.277
- gendstat: Morocco_Iberomaurusian Russia_EHG -0.304
- gendstat: Morocco_Iberomaurusian Yana_UP -0.511
- gendstat: Morocco_Iberomaurusian Iran_N 0.184
- gendstat: Morocco_Iberomaurusian CHB.SG -1.125
- gendstat: Morocco_Iberomaurusian ONG.SG -0.508
- gendstat: Morocco_Iberomaurusian Papuan -0.174
- gendstat: Morocco_Iberomaurusian Russia_ANE -0.986
- gendstat: Morocco_Iberomaurusian Kazakhstan_Botai -0.059
- gendstat: AHG Anatolia_N -1.705
- gendstat: AHG WHG -0.719
- gendstat: AHG Russia_EHG -1.302
- gendstat: AHG Yana_UP -1.384
- gendstat: AHG Iran_N -0.811
- gendstat: AHG CHB.SG -2.159
- gendstat: AHG ONG.SG -1.419
- gendstat: AHG Papuan -1.190
- gendstat: AHG Russia_ANE -1.838
- gendstat: AHG Kazakhstan_Botai -1.081
- gendstat: Anatolia_N WHG 0.765
- gendstat: Anatolia_N Russia_EHG 0.084
- gendstat: Anatolia_N Yana_UP -0.169
- gendstat: Anatolia_N Iran_N 0.632
- gendstat: Anatolia_N CHB.SG -0.813
- gendstat: Anatolia_N ONG.SG -0.140
- gendstat: Anatolia_N Papuan 0.242
- gendstat: Anatolia_N Russia_ANE -0.755
- gendstat: Anatolia_N Kazakhstan_Botai 0.377
- gendstat: WHG Russia_EHG -0.652
- gendstat: WHG Yana_UP -0.770
- gendstat: WHG Iran_N -0.092
- gendstat: WHG CHB.SG -1.348
- gendstat: WHG ONG.SG -0.742
- gendstat: WHG Papuan -0.420
- gendstat: WHG Russia_ANE -1.285
- gendstat: WHG Kazakhstan_Botai -0.362
- gendstat: Russia_EHG Yana_UP -0.228
- gendstat: Russia_EHG Iran_N 0.481
- gendstat: Russia_EHG CHB.SG -0.798
- gendstat: Russia_EHG ONG.SG -0.190
- gendstat: Russia_EHG Papuan 0.142
- gendstat: Russia_EHG Russia_ANE -0.867
- gendstat: Russia_EHG Kazakhstan_Botai 0.317
- gendstat: Yana_UP Iran_N 0.649
- gendstat: Yana_UP CHB.SG -0.492
- gendstat: Yana_UP ONG.SG 0.036
- gendstat: Yana_UP Papuan 0.368
- gendstat: Yana_UP Russia_ANE -0.543
- gendstat: Yana_UP Kazakhstan_Botai 0.477
- gendstat: Iran_N CHB.SG -1.343
- gendstat: Iran_N ONG.SG -0.690
- gendstat: Iran_N Papuan -0.368
- gendstat: Iran_N Russia_ANE -1.145
- gendstat: Iran_N Kazakhstan_Botai -0.251
- gendstat: CHB.SG ONG.SG 0.635
- gendstat: CHB.SG Papuan 1.104
- gendstat: CHB.SG Russia_ANE -0.157
- gendstat: CHB.SG Kazakhstan_Botai 1.197
- gendstat: ONG.SG Papuan 0.390
- gendstat: ONG.SG Russia_ANE -0.573
- gendstat: ONG.SG Kazakhstan_Botai 0.458
- gendstat: Papuan Russia_ANE -0.882
- gendstat: Papuan Kazakhstan_Botai 0.111
- gendstat: Russia_ANE Kazakhstan_Botai 1.179
- ## end of run
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