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Legend_9813

Arora-Khatri_qpAdm with BMAC as outgrup

Legend_9813
Jun 27th, 2023 (edited)
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  1. qpAdm: parameter file: parqpadm
  2. ### THE INPUT PARAMETERS
  3. ##PARAMETER NAME: VALUE
  4. indivname: Indian.ind
  5. snpname: Indian.snp
  6. genotypename: Indian.geno
  7. popleft: left
  8. popright: right
  9. inbreed: NO
  10. allsnps: YES
  11. details: YES
  12. ## qpAdm version: 1520
  13. seed: 104915791
  14. inbreed set NO
  15. inbreed set NO
  16. tmp: /tmp/fsx.3235
  17.  
  18. left pops:
  19. Arora-Khatri_mix
  20. Indus_medAASI
  21. Russia_Andronovo.SG
  22.  
  23. right pops:
  24. Mbuti.DG
  25. EHG
  26. CHG
  27. WSHG
  28. Onge.DG
  29. Turkey_N
  30. Iraq_PPNA
  31. Levant_PPN
  32. CHN_Tarim_EMBA1
  33. Iran_GanjDareh_N
  34. Mongolia_North_N
  35. Serbia_IronGates_Mesolithic
  36. Uzbekistan_Dzharkutan_BA_1
  37.  
  38. codimension 1
  39. f4info:
  40. f4rank: 1 dof: 11 chisq: 6.902 tail: 0.807000226 dofdiff: 13 chisqdiff: -6.902 taildiff: 1
  41. B:
  42. scale 1.000
  43. EHG 1.606
  44. CHG 0.589
  45. WSHG 1.005
  46. Onge.DG -0.553
  47. Turkey_N 1.216
  48. Iraq_PPNA 0.516
  49. Levant_PPN 1.030
  50. CHN_Tarim_EMBA1 0.892
  51. Iran_GanjDareh_N -0.251
  52. Mongolia_North_N -0.289
  53. Serbia_IronGates_Mesolithic 1.993
  54. Uzbekistan_Dzharkutan_BA_1 0.192
  55. A:
  56. scale 108.301
  57. Indus_medAASI -0.440
  58. Russia_Andronovo.SG 1.344
  59.  
  60.  
  61. full rank
  62. f4info:
  63. f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 11 chisqdiff: 6.902 taildiff: 0.807000226
  64. B:
  65. scale 267.405 77.315
  66. EHG -1.660 1.570
  67. CHG -0.616 0.583
  68. WSHG -0.738 1.057
  69. Onge.DG 0.628 -0.516
  70. Turkey_N -1.258 1.202
  71. Iraq_PPNA -0.181 0.607
  72. Levant_PPN -0.727 1.102
  73. CHN_Tarim_EMBA1 -1.173 0.825
  74. Iran_GanjDareh_N 0.810 -0.113
  75. Mongolia_North_N 0.235 -0.290
  76. Serbia_IronGates_Mesolithic -1.922 1.988
  77. Uzbekistan_Dzharkutan_BA_1 -0.032 0.235
  78. A:
  79. scale 1.414 1.414
  80. Indus_medAASI 1.414 0.000
  81. Russia_Andronovo.SG 0.000 1.414
  82.  
  83.  
  84. best coefficients: 0.753 0.247
  85. totmean: 0.753 0.247
  86. boot mean: 0.753 0.247
  87. std. errors: 0.026 0.026
  88.  
  89. error covariance (* 1,000,000)
  90. 667 -667
  91. -667 667
  92.  
  93.  
  94. summ: Arora-Khatri_mix 2 0.807000 0.753 0.247 667 -667 667
  95.  
  96. fixed pat wt dof chisq tail prob
  97. 00 0 11 6.902 0.807 0.753 0.247
  98. 01 1 12 87.533 1.48013e-13 1.000 0.000
  99. 10 1 12 701.043 0 0.000 1.000
  100. best pat: 00 0.807 - -
  101. best pat: 01 1.48013e-13 chi(nested): 80.631 p-value for nested model: 2.71995e-19
  102.  
  103. coeffs: 0.753 0.247
  104.  
  105. ## dscore:: f_4(Base, Fit, Rbase, right2)
  106. ## genstat:: f_4(Base, Fit, right1, right2)
  107.  
  108. details: Indus_medAASI EHG -0.006209 -4.150115
  109. details: Russia_Andronovo.SG EHG 0.020307 14.123093
  110. dscore: EHG f4: 0.000330 Z: 0.237285
  111.  
  112. details: Indus_medAASI CHG -0.002302 -1.327942
  113. details: Russia_Andronovo.SG CHG 0.007539 4.677472
  114. dscore: CHG f4: 0.000125 Z: 0.078346
  115.  
  116. details: Indus_medAASI WSHG -0.002760 -1.537311
  117. details: Russia_Andronovo.SG WSHG 0.013675 7.769940
  118. dscore: WSHG f4: 0.001293 Z: 0.775119
  119.  
  120. details: Indus_medAASI Onge.DG 0.002347 1.410970
  121. details: Russia_Andronovo.SG Onge.DG -0.006678 -4.220096
  122. dscore: Onge.DG f4: 0.000121 Z: 0.078889
  123.  
  124. details: Indus_medAASI Turkey_N -0.004703 -3.883687
  125. details: Russia_Andronovo.SG Turkey_N 0.015541 13.218460
  126. dscore: Turkey_N f4: 0.000289 Z: 0.258378
  127.  
  128. details: Indus_medAASI Iraq_PPNA -0.000677 -0.367689
  129. details: Russia_Andronovo.SG Iraq_PPNA 0.007856 4.464331
  130. dscore: Iraq_PPNA f4: 0.001427 Z: 0.836217
  131.  
  132. details: Indus_medAASI Levant_PPN -0.002719 -1.747447
  133. details: Russia_Andronovo.SG Levant_PPN 0.014257 9.237622
  134. dscore: Levant_PPN f4: 0.001467 Z: 1.005266
  135.  
  136. details: Indus_medAASI CHN_Tarim_EMBA1 -0.004388 -2.520899
  137. details: Russia_Andronovo.SG CHN_Tarim_EMBA1 0.010670 6.257121
  138. dscore: CHN_Tarim_EMBA1 f4: -0.000675 Z: -0.415196
  139.  
  140. details: Indus_medAASI Iran_GanjDareh_N 0.003029 2.083232
  141. details: Russia_Andronovo.SG Iran_GanjDareh_N -0.001460 -1.077127
  142. dscore: Iran_GanjDareh_N f4: 0.001922 Z: 1.429800
  143.  
  144. details: Indus_medAASI Mongolia_North_N 0.000880 0.598680
  145. details: Russia_Andronovo.SG Mongolia_North_N -0.003745 -2.484779
  146. dscore: Mongolia_North_N f4: -0.000261 Z: -0.186979
  147.  
  148. details: Indus_medAASI Serbia_IronGates_Mesolithic -0.007187 -5.095597
  149. details: Russia_Andronovo.SG Serbia_IronGates_Mesolithic 0.025708 18.517232
  150. dscore: Serbia_IronGates_Mesolithic f4: 0.000925 Z: 0.703524
  151.  
  152. details: Indus_medAASI Uzbekistan_Dzharkutan_BA_1 -0.000121 -0.091156
  153. details: Russia_Andronovo.SG Uzbekistan_Dzharkutan_BA_1 0.003042 2.417274
  154. dscore: Uzbekistan_Dzharkutan_BA_1 f4: 0.000659 Z: 0.536324
  155.  
  156. gendstat: Mbuti.DG EHG 0.237
  157. gendstat: Mbuti.DG CHG 0.078
  158. gendstat: Mbuti.DG WSHG 0.775
  159. gendstat: Mbuti.DG Onge.DG 0.079
  160. gendstat: Mbuti.DG Turkey_N 0.258
  161. gendstat: Mbuti.DG Iraq_PPNA 0.836
  162. gendstat: Mbuti.DG Levant_PPN 1.005
  163. gendstat: Mbuti.DG CHN_Tarim_EMBA1 -0.415
  164. gendstat: Mbuti.DG Iran_GanjDareh_N 1.430
  165. gendstat: Mbuti.DG Mongolia_North_N -0.187
  166. gendstat: Mbuti.DG Serbia_IronGates_Mesolithic 0.704
  167. gendstat: Mbuti.DG Uzbekistan_Dzharkutan_BA_1 0.536
  168. gendstat: EHG CHG -0.132
  169. gendstat: EHG WSHG 0.813
  170. gendstat: EHG Onge.DG -0.133
  171. gendstat: EHG Turkey_N -0.037
  172. gendstat: EHG Iraq_PPNA 0.616
  173. gendstat: EHG Levant_PPN 0.773
  174. gendstat: EHG CHN_Tarim_EMBA1 -0.887
  175. gendstat: EHG Iran_GanjDareh_N 1.156
  176. gendstat: EHG Mongolia_North_N -0.422
  177. gendstat: EHG Serbia_IronGates_Mesolithic 0.640
  178. gendstat: EHG Uzbekistan_Dzharkutan_BA_1 0.283
  179. gendstat: CHG WSHG 0.642
  180. gendstat: CHG Onge.DG -0.002
  181. gendstat: CHG Turkey_N 0.118
  182. gendstat: CHG Iraq_PPNA 0.690
  183. gendstat: CHG Levant_PPN 0.816
  184. gendstat: CHG CHN_Tarim_EMBA1 -0.458
  185. gendstat: CHG Iran_GanjDareh_N 1.207
  186. gendstat: CHG Mongolia_North_N -0.218
  187. gendstat: CHG Serbia_IronGates_Mesolithic 0.538
  188. gendstat: CHG Uzbekistan_Dzharkutan_BA_1 0.385
  189. gendstat: WSHG Onge.DG -0.653
  190. gendstat: WSHG Turkey_N -0.671
  191. gendstat: WSHG Iraq_PPNA 0.068
  192. gendstat: WSHG Levant_PPN 0.099
  193. gendstat: WSHG CHN_Tarim_EMBA1 -1.386
  194. gendstat: WSHG Iran_GanjDareh_N 0.389
  195. gendstat: WSHG Mongolia_North_N -0.916
  196. gendstat: WSHG Serbia_IronGates_Mesolithic -0.255
  197. gendstat: WSHG Uzbekistan_Dzharkutan_BA_1 -0.431
  198. gendstat: Onge.DG Turkey_N 0.116
  199. gendstat: Onge.DG Iraq_PPNA 0.649
  200. gendstat: Onge.DG Levant_PPN 0.792
  201. gendstat: Onge.DG CHN_Tarim_EMBA1 -0.472
  202. gendstat: Onge.DG Iran_GanjDareh_N 1.071
  203. gendstat: Onge.DG Mongolia_North_N -0.276
  204. gendstat: Onge.DG Serbia_IronGates_Mesolithic 0.534
  205. gendstat: Onge.DG Uzbekistan_Dzharkutan_BA_1 0.368
  206. gendstat: Turkey_N Iraq_PPNA 0.737
  207. gendstat: Turkey_N Levant_PPN 1.074
  208. gendstat: Turkey_N CHN_Tarim_EMBA1 -0.661
  209. gendstat: Turkey_N Iran_GanjDareh_N 1.433
  210. gendstat: Turkey_N Mongolia_North_N -0.407
  211. gendstat: Turkey_N Serbia_IronGates_Mesolithic 0.695
  212. gendstat: Turkey_N Uzbekistan_Dzharkutan_BA_1 0.401
  213. gendstat: Iraq_PPNA Levant_PPN 0.023
  214. gendstat: Iraq_PPNA CHN_Tarim_EMBA1 -1.073
  215. gendstat: Iraq_PPNA Iran_GanjDareh_N 0.294
  216. gendstat: Iraq_PPNA Mongolia_North_N -0.877
  217. gendstat: Iraq_PPNA Serbia_IronGates_Mesolithic -0.292
  218. gendstat: Iraq_PPNA Uzbekistan_Dzharkutan_BA_1 -0.478
  219. gendstat: Levant_PPN CHN_Tarim_EMBA1 -1.260
  220. gendstat: Levant_PPN Iran_GanjDareh_N 0.312
  221. gendstat: Levant_PPN Mongolia_North_N -1.042
  222. gendstat: Levant_PPN Serbia_IronGates_Mesolithic -0.394
  223. gendstat: Levant_PPN Uzbekistan_Dzharkutan_BA_1 -0.629
  224. gendstat: CHN_Tarim_EMBA1 Iran_GanjDareh_N 1.629
  225. gendstat: CHN_Tarim_EMBA1 Mongolia_North_N 0.267
  226. gendstat: CHN_Tarim_EMBA1 Serbia_IronGates_Mesolithic 1.133
  227. gendstat: CHN_Tarim_EMBA1 Uzbekistan_Dzharkutan_BA_1 0.976
  228. gendstat: Iran_GanjDareh_N Mongolia_North_N -1.409
  229. gendstat: Iran_GanjDareh_N Serbia_IronGates_Mesolithic -0.747
  230. gendstat: Iran_GanjDareh_N Uzbekistan_Dzharkutan_BA_1 -1.215
  231. gendstat: Mongolia_North_N Serbia_IronGates_Mesolithic 0.859
  232. gendstat: Mongolia_North_N Uzbekistan_Dzharkutan_BA_1 0.678
  233. gendstat: Serbia_IronGates_Mesolithic Uzbekistan_Dzharkutan_BA_1 -0.237
  234.  
  235. removing /tmp/fsx.3235
  236. ##end of qpAdm: 1.189 seconds cpu 0.782 Mbytes in use
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