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misnomer001

yamnaya ehg + chg +gac fail

misnomer001
Aug 2nd, 2022
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  1. qpAdm: parameter file: parqpadm
  2. ### THE INPUT PARAMETERS
  3. ##PARAMETER NAME: VALUE
  4. popleft: left
  5. popright: right
  6. details: YES
  7. allsnps: YES
  8. inbreed: NO
  9. oldallsnps: NO
  10. S1: newpush
  11. S1X: newpush
  12. indivname: newpush.ind
  13. snpname: newpush.snp
  14. genotypename: newpush.geno
  15. ## qpAdm version: 1520
  16. seed: 1195915849
  17. inbreed set NO
  18. inbreed set NO
  19. tmp: /tmp/fsx.15576
  20.  
  21. left pops:
  22. Russia_Samara_EBA_Yamnaya
  23. EHG
  24. CHG
  25. Poland_Globular_Amphora
  26.  
  27. right pops:
  28. Mbuti.DG
  29. Serbia_IronGates_Mesolithic
  30. Iran_GanjDareh_N
  31. Sunghir
  32. China_YR_MN
  33. Turkey_N
  34. Russia_Yana_UP.SG
  35. Russia_Shamanka_Eneolithic.SG
  36. ONG.SG
  37. WSHG
  38. Tarim_EMBA1
  39.  
  40. codimension 1
  41. f4info:
  42. f4rank: 2 dof: 8 chisq: 40.773 tail: 2.29674658e-06 dofdiff: 10 chisqdiff: -40.773 taildiff: 1
  43. B:
  44. scale 1.000 1.000
  45. Serbia_IronGates_Mesolithic 0.896 1.994
  46. Iran_GanjDareh_N -0.227 -0.977
  47. Sunghir 0.354 0.493
  48. China_YR_MN 0.429 -0.113
  49. Turkey_N -0.497 2.036
  50. Russia_Yana_UP.SG 0.567 0.223
  51. Russia_Shamanka_Eneolithic.SG 0.613 -0.282
  52. ONG.SG 0.304 -0.192
  53. WSHG 1.939 -0.124
  54. Tarim_EMBA1 2.010 -0.697
  55. A:
  56. scale 77.416 174.100
  57. EHG 1.094 0.392
  58. CHG -1.047 -0.828
  59. Poland_Globular_Amphora -0.841 1.470
  60.  
  61.  
  62. full rank
  63. f4info:
  64. f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 8 chisqdiff: 40.773 taildiff: 2.29674658e-06
  65. B:
  66. scale 74.974 63.032 68.415
  67. Serbia_IronGates_Mesolithic 1.163 -1.520 0.388
  68. Iran_GanjDareh_N -0.604 0.269 -0.514
  69. Sunghir 0.406 -0.560 -0.030
  70. China_YR_MN 0.405 -0.433 -0.415
  71. Turkey_N -0.326 -0.362 1.431
  72. Russia_Yana_UP.SG 0.592 -0.615 -0.332
  73. Russia_Shamanka_Eneolithic.SG 0.576 -0.528 -0.644
  74. ONG.SG 0.130 -0.396 -0.430
  75. WSHG 1.980 -1.751 -1.595
  76. Tarim_EMBA1 1.796 -1.762 -2.027
  77. A:
  78. scale 1.732 1.732 1.732
  79. EHG 1.732 0.000 0.000
  80. CHG 0.000 1.732 0.000
  81. Poland_Globular_Amphora 0.000 0.000 1.732
  82.  
  83.  
  84. best coefficients: 0.479 0.415 0.106
  85. totmean: 0.479 0.415 0.106
  86. boot mean: 0.479 0.415 0.106
  87. std. errors: 0.010 0.014 0.014
  88.  
  89. error covariance (* 1,000,000)
  90. 103 -63 -40
  91. -63 210 -147
  92. -40 -147 187
  93.  
  94.  
  95. summ: Russia_Samara_EBA_Yamnaya 3 0.000002 0.479 0.415 0.106 103 -63 -40 210 -147 ...
  96. 187
  97.  
  98. fixed pat wt dof chisq tail prob
  99. 000 0 8 40.773 2.29675e-06 0.479 0.415 0.106
  100. 001 1 9 96.864 6.76721e-17 0.498 0.502 0.000
  101. 010 1 9 745.515 0 0.590 0.000 0.410
  102. 100 1 9 1190.579 0 0.000 1.204 -0.204 infeasible
  103. 011 2 10 1603.067 0 1.000 0.000 0.000
  104. 101 2 10 1235.852 0 0.000 1.000 0.000
  105. 110 2 10 2279.209 0 0.000 0.000 1.000
  106. best pat: 000 2.29675e-06 - -
  107. best pat: 001 6.76721e-17 chi(nested): 56.091 p-value for nested model: 6.92039e-14
  108. best pat: 101 2.65743e-259 chi(nested): 1138.988 p-value for nested model: 1.11061e-249
  109.  
  110. coeffs: 0.479 0.415 0.106
  111.  
  112. ## dscore:: f_4(Base, Fit, Rbase, right2)
  113. ## genstat:: f_4(Base, Fit, right1, right2)
  114.  
  115. details: EHG Serbia_IronGates_Mesolithic 0.015516 16.691618
  116. details: CHG Serbia_IronGates_Mesolithic -0.024114 -21.138544
  117. details: Poland_Globular_Amphora Serbia_IronGates_Mesolithic 0.005674 5.394173
  118. dscore: Serbia_IronGates_Mesolithic f4: -0.001973 Z: -2.626193
  119.  
  120. details: EHG Iran_GanjDareh_N -0.008057 -9.011642
  121. details: CHG Iran_GanjDareh_N 0.004274 4.147993
  122. details: Poland_Globular_Amphora Iran_GanjDareh_N -0.007513 -7.867909
  123. dscore: Iran_GanjDareh_N f4: -0.002882 Z: -4.266236
  124.  
  125. details: EHG Sunghir 0.005417 5.792853
  126. details: CHG Sunghir -0.008880 -7.921947
  127. details: Poland_Globular_Amphora Sunghir -0.000440 -0.421167
  128. dscore: Sunghir f4: -0.001138 Z: -1.538626
  129.  
  130. details: EHG China_YR_MN 0.005400 5.462979
  131. details: CHG China_YR_MN -0.006862 -5.842954
  132. details: Poland_Globular_Amphora China_YR_MN -0.006063 -5.855318
  133. dscore: China_YR_MN f4: -0.000905 Z: -1.174330
  134.  
  135. details: EHG Turkey_N -0.004350 -5.326306
  136. details: CHG Turkey_N -0.005750 -6.015463
  137. details: Poland_Globular_Amphora Turkey_N 0.020919 22.166912
  138. dscore: Turkey_N f4: -0.002249 Z: -3.549808
  139.  
  140. details: EHG Russia_Yana_UP.SG 0.007900 7.384969
  141. details: CHG Russia_Yana_UP.SG -0.009765 -8.499339
  142. details: Poland_Globular_Amphora Russia_Yana_UP.SG -0.004859 -4.307933
  143. dscore: Russia_Yana_UP.SG f4: -0.000784 Z: -0.990427
  144.  
  145. details: EHG Russia_Shamanka_Eneolithic.SG 0.007683 8.622833
  146. details: CHG Russia_Shamanka_Eneolithic.SG -0.008376 -7.997736
  147. details: Poland_Globular_Amphora Russia_Shamanka_Eneolithic.SG -0.009409 -9.977645
  148. dscore: Russia_Shamanka_Eneolithic.SG f4: -0.000795 Z: -1.143240
  149.  
  150. details: EHG ONG.SG 0.001727 1.813984
  151. details: CHG ONG.SG -0.006288 -5.506721
  152. details: Poland_Globular_Amphora ONG.SG -0.006278 -6.322303
  153. dscore: ONG.SG f4: -0.002449 Z: -3.334524
  154.  
  155. details: EHG WSHG 0.026414 23.481802
  156. details: CHG WSHG -0.027778 -21.673408
  157. details: Poland_Globular_Amphora WSHG -0.023313 -19.112533
  158. dscore: WSHG f4: -0.001351 Z: -1.582423
  159.  
  160. details: EHG Tarim_EMBA1 0.023954 20.423190
  161. details: CHG Tarim_EMBA1 -0.027955 -21.397495
  162. details: Poland_Globular_Amphora Tarim_EMBA1 -0.029635 -25.350388
  163. dscore: Tarim_EMBA1 f4: -0.003274 Z: -3.796981
  164.  
  165. gendstat: Mbuti.DG Serbia_IronGates_Mesolithic -2.626
  166. gendstat: Mbuti.DG Iran_GanjDareh_N -4.266
  167. gendstat: Mbuti.DG Sunghir -1.539
  168. gendstat: Mbuti.DG China_YR_MN -1.174
  169. gendstat: Mbuti.DG Turkey_N -3.550
  170. gendstat: Mbuti.DG Russia_Yana_UP.SG -0.990
  171. gendstat: Mbuti.DG Russia_Shamanka_Eneolithic.SG -1.143
  172. gendstat: Mbuti.DG ONG.SG -3.335
  173. gendstat: Mbuti.DG WSHG -1.582
  174. gendstat: Mbuti.DG Tarim_EMBA1 -3.797
  175. gendstat: Serbia_IronGates_Mesolithic Iran_GanjDareh_N -1.267
  176. gendstat: Serbia_IronGates_Mesolithic Sunghir 1.232
  177. gendstat: Serbia_IronGates_Mesolithic China_YR_MN 1.321
  178. gendstat: Serbia_IronGates_Mesolithic Turkey_N -0.485
  179. gendstat: Serbia_IronGates_Mesolithic Russia_Yana_UP.SG 1.510
  180. gendstat: Serbia_IronGates_Mesolithic Russia_Shamanka_Eneolithic.SG 1.680
  181. gendstat: Serbia_IronGates_Mesolithic ONG.SG -0.639
  182. gendstat: Serbia_IronGates_Mesolithic WSHG 0.787
  183. gendstat: Serbia_IronGates_Mesolithic Tarim_EMBA1 -1.560
  184. gendstat: Iran_GanjDareh_N Sunghir 2.538
  185. gendstat: Iran_GanjDareh_N China_YR_MN 2.602
  186. gendstat: Iran_GanjDareh_N Turkey_N 1.093
  187. gendstat: Iran_GanjDareh_N Russia_Yana_UP.SG 2.622
  188. gendstat: Iran_GanjDareh_N Russia_Shamanka_Eneolithic.SG 3.035
  189. gendstat: Iran_GanjDareh_N ONG.SG 0.610
  190. gendstat: Iran_GanjDareh_N WSHG 1.948
  191. gendstat: Iran_GanjDareh_N Tarim_EMBA1 -0.494
  192. gendstat: Sunghir China_YR_MN 0.302
  193. gendstat: Sunghir Turkey_N -1.700
  194. gendstat: Sunghir Russia_Yana_UP.SG 0.468
  195. gendstat: Sunghir Russia_Shamanka_Eneolithic.SG 0.494
  196. gendstat: Sunghir ONG.SG -1.791
  197. gendstat: Sunghir WSHG -0.259
  198. gendstat: Sunghir Tarim_EMBA1 -2.609
  199. gendstat: China_YR_MN Turkey_N -1.844
  200. gendstat: China_YR_MN Russia_Yana_UP.SG 0.153
  201. gendstat: China_YR_MN Russia_Shamanka_Eneolithic.SG 0.220
  202. gendstat: China_YR_MN ONG.SG -2.255
  203. gendstat: China_YR_MN WSHG -0.540
  204. gendstat: China_YR_MN Tarim_EMBA1 -2.938
  205. gendstat: Turkey_N Russia_Yana_UP.SG 1.946
  206. gendstat: Turkey_N Russia_Shamanka_Eneolithic.SG 2.336
  207. gendstat: Turkey_N ONG.SG -0.296
  208. gendstat: Turkey_N WSHG 1.151
  209. gendstat: Turkey_N Tarim_EMBA1 -1.270
  210. gendstat: Russia_Yana_UP.SG Russia_Shamanka_Eneolithic.SG -0.015
  211. gendstat: Russia_Yana_UP.SG ONG.SG -2.136
  212. gendstat: Russia_Yana_UP.SG WSHG -0.668
  213. gendstat: Russia_Yana_UP.SG Tarim_EMBA1 -3.080
  214. gendstat: Russia_Shamanka_Eneolithic.SG ONG.SG -2.704
  215. gendstat: Russia_Shamanka_Eneolithic.SG WSHG -0.740
  216. gendstat: Russia_Shamanka_Eneolithic.SG Tarim_EMBA1 -3.469
  217. gendstat: ONG.SG WSHG 1.279
  218. gendstat: ONG.SG Tarim_EMBA1 -0.999
  219. gendstat: WSHG Tarim_EMBA1 -2.698
  220.  
  221. removing /tmp/fsx.15576
  222. ##end of qpAdm: 6.079 seconds cpu 0.430 Mbytes in use
  223.  
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