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misnomer001

dali_mlba chemurchek

misnomer001
Apr 20th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1851817736
  4. read 1073741824 bytes
  5. read 2146675633 bytes
  6. packed geno read OK
  7. end of inpack
  8.  
  9. left pops:
  10. Kazakhstan_MLBA_Dali
  11. Russia_MLBA_Sintashta
  12. Mongolia_EBA_2_Chemurchek
  13.  
  14. right pops:
  15. Cameroon_SMA.DG
  16. EEHG
  17. WSHG
  18. PPN
  19. WEHG
  20. Anatolia_N
  21. Iran_GanjDareh_N
  22. Russia_UstBelaya_Angara
  23. ONG.SG
  24. Russia_Steppe_Eneolithic
  25. Kazakhstan_Kumsay_EBA
  26. Botai
  27. Geoksyur_EN
  28.  
  29. 0 Kazakhstan_MLBA_Dali 3
  30. 1 Russia_MLBA_Sintashta 36
  31. 2 Mongolia_EBA_2_Chemurchek 2
  32. 3 Cameroon_SMA.DG 1
  33. 4 EEHG 5
  34. 5 WSHG 3
  35. 6 PPN 11
  36. 7 WEHG 33
  37. 8 Anatolia_N 22
  38. 9 Iran_GanjDareh_N 8
  39. 10 Russia_UstBelaya_Angara 8
  40. 11 ONG.SG 6
  41. 12 Russia_Steppe_Eneolithic 3
  42. 13 Kazakhstan_Kumsay_EBA 4
  43. 14 Botai 2
  44. 15 Geoksyur_EN 21
  45. jackknife block size: 0.050
  46. snps: 1150506 indivs: 168
  47. number of blocks for block jackknife: 713
  48. ## ncols: 1150506
  49. coverage: Kazakhstan_MLBA_Dali 931588
  50. coverage: Russia_MLBA_Sintashta 1128449
  51. coverage: Mongolia_EBA_2_Chemurchek 925265
  52. coverage: Cameroon_SMA.DG 1140138
  53. coverage: EEHG 1052093
  54. coverage: WSHG 858019
  55. coverage: PPN 847771
  56. coverage: WEHG 1140599
  57. coverage: Anatolia_N 1139031
  58. coverage: Iran_GanjDareh_N 1057358
  59. coverage: Russia_UstBelaya_Angara 1072574
  60. coverage: ONG.SG 1143397
  61. coverage: Russia_Steppe_Eneolithic 1008226
  62. coverage: Kazakhstan_Kumsay_EBA 960872
  63. coverage: Botai 926654
  64. coverage: Geoksyur_EN 1020133
  65. dof (jackknife): 618.547
  66. numsnps used: 1150506
  67. codimension 1
  68. f4info:
  69. f4rank: 1 dof: 11 chisq: 9.606 tail: 0.566170005 dofdiff: 13 chisqdiff: -9.606 taildiff: 1
  70. B:
  71. scale 1.000
  72. EEHG 0.456
  73. WSHG 1.365
  74. PPN -1.063
  75. WEHG -1.223
  76. Anatolia_N -1.455
  77. Iran_GanjDareh_N -0.112
  78. Russia_UstBelaya_Angara 1.267
  79. ONG.SG 0.412
  80. Russia_Steppe_Eneolithic 0.149
  81. Kazakhstan_Kumsay_EBA 0.973
  82. Botai 1.558
  83. Geoksyur_EN -0.048
  84. A:
  85. scale 655.707
  86. Russia_MLBA_Sintashta -0.590
  87. Mongolia_EBA_2_Chemurchek 1.285
  88.  
  89.  
  90. full rank
  91. f4info:
  92. f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 11 chisqdiff: 9.606 taildiff: 0.566170005
  93. B:
  94. scale 1028.009 522.503
  95. EEHG -0.713 0.341
  96. WSHG -1.197 1.460
  97. PPN 1.004 -1.042
  98. WEHG 0.835 -1.392
  99. Anatolia_N 1.193 -1.521
  100. Iran_GanjDareh_N 0.068 -0.112
  101. Russia_UstBelaya_Angara -1.355 1.197
  102. ONG.SG -0.820 0.195
  103. Russia_Steppe_Eneolithic -0.239 0.128
  104. Kazakhstan_Kumsay_EBA -1.113 0.898
  105. Botai -1.766 1.453
  106. Geoksyur_EN 0.047 -0.016
  107. A:
  108. scale 1.414 1.414
  109. Russia_MLBA_Sintashta 1.414 0.000
  110. Mongolia_EBA_2_Chemurchek 0.000 1.414
  111.  
  112.  
  113. best coefficients: 0.685 0.315
  114. Jackknife mean: 0.685664519 0.314335481
  115. std. errors: 0.025 0.025
  116.  
  117. error covariance (* 1,000,000)
  118. 614 -614
  119. -614 614
  120.  
  121.  
  122. summ: Kazakhstan_MLBA_Dali 2 0.566170 0.686 0.314 614 -614 614
  123.  
  124. fixed pat wt dof chisq tail prob
  125. 00 0 11 9.606 0.56617 0.685 0.315
  126. 01 1 12 166.562 2.408e-29 1.000 0.000
  127. 10 1 12 443.527 0 0.000 1.000
  128. best pat: 00 0.56617 - -
  129. best pat: 01 2.408e-29 chi(nested): 156.956 p-value for nested model: 5.23276e-36
  130.  
  131. coeffs: 0.685 0.315
  132.  
  133. ## dscore:: f_4(Base, Fit, Rbase, right2)
  134. ## genstat:: f_4(Base, Fit, right1, right2)
  135.  
  136. details: Russia_MLBA_Sintashta EEHG -0.000694 -2.381941
  137. details: Mongolia_EBA_2_Chemurchek EEHG 0.000652 1.843211
  138. dscore: EEHG f4: -0.000270 Z: -0.958267
  139.  
  140. details: Russia_MLBA_Sintashta WSHG -0.001164 -4.054193
  141. details: Mongolia_EBA_2_Chemurchek WSHG 0.002794 7.015884
  142. dscore: WSHG f4: 0.000081 Z: 0.278433
  143.  
  144. details: Russia_MLBA_Sintashta PPN 0.000977 3.929073
  145. details: Mongolia_EBA_2_Chemurchek PPN -0.001994 -6.004799
  146. dscore: PPN f4: 0.000043 Z: 0.170204
  147.  
  148. details: Russia_MLBA_Sintashta WEHG 0.000813 3.051520
  149. details: Mongolia_EBA_2_Chemurchek WEHG -0.002665 -8.265589
  150. dscore: WEHG f4: -0.000281 Z: -1.096554
  151.  
  152. details: Russia_MLBA_Sintashta Anatolia_N 0.001160 4.788227
  153. details: Mongolia_EBA_2_Chemurchek Anatolia_N -0.002910 -9.729869
  154. dscore: Anatolia_N f4: -0.000120 Z: -0.508102
  155.  
  156. details: Russia_MLBA_Sintashta Iran_GanjDareh_N 0.000066 0.260844
  157. details: Mongolia_EBA_2_Chemurchek Iran_GanjDareh_N -0.000213 -0.690023
  158. dscore: Iran_GanjDareh_N f4: -0.000022 Z: -0.088515
  159.  
  160. details: Russia_MLBA_Sintashta Russia_UstBelaya_Angara -0.001318 -4.887187
  161. details: Mongolia_EBA_2_Chemurchek Russia_UstBelaya_Angara 0.002290 6.973740
  162. dscore: Russia_UstBelaya_Angara f4: -0.000183 Z: -0.705351
  163.  
  164. details: Russia_MLBA_Sintashta ONG.SG -0.000798 -3.069802
  165. details: Mongolia_EBA_2_Chemurchek ONG.SG 0.000372 1.147115
  166. dscore: ONG.SG f4: -0.000430 Z: -1.686470
  167.  
  168. details: Russia_MLBA_Sintashta Russia_Steppe_Eneolithic -0.000233 -0.882981
  169. details: Mongolia_EBA_2_Chemurchek Russia_Steppe_Eneolithic 0.000245 0.718968
  170. dscore: Russia_Steppe_Eneolithic f4: -0.000083 Z: -0.318822
  171.  
  172. details: Russia_MLBA_Sintashta Kazakhstan_Kumsay_EBA -0.001082 -4.040627
  173. details: Mongolia_EBA_2_Chemurchek Kazakhstan_Kumsay_EBA 0.001718 4.878058
  174. dscore: Kazakhstan_Kumsay_EBA f4: -0.000202 Z: -0.760911
  175.  
  176. details: Russia_MLBA_Sintashta Botai -0.001718 -5.719679
  177. details: Mongolia_EBA_2_Chemurchek Botai 0.002781 7.135438
  178. dscore: Botai f4: -0.000303 Z: -1.026152
  179.  
  180. details: Russia_MLBA_Sintashta Geoksyur_EN 0.000046 0.197422
  181. details: Mongolia_EBA_2_Chemurchek Geoksyur_EN -0.000030 -0.103139
  182. dscore: Geoksyur_EN f4: 0.000022 Z: 0.097938
  183.  
  184. gendstat: Cameroon_SMA.DG EEHG -0.958
  185. gendstat: Cameroon_SMA.DG WSHG 0.278
  186. gendstat: Cameroon_SMA.DG PPN 0.170
  187. gendstat: Cameroon_SMA.DG WEHG -1.097
  188. gendstat: Cameroon_SMA.DG Anatolia_N -0.508
  189. gendstat: Cameroon_SMA.DG Iran_GanjDareh_N -0.089
  190. gendstat: Cameroon_SMA.DG Russia_UstBelaya_Angara -0.705
  191. gendstat: Cameroon_SMA.DG ONG.SG -1.686
  192. gendstat: Cameroon_SMA.DG Russia_Steppe_Eneolithic -0.319
  193. gendstat: Cameroon_SMA.DG Kazakhstan_Kumsay_EBA -0.761
  194. gendstat: Cameroon_SMA.DG Botai -1.026
  195. gendstat: Cameroon_SMA.DG Geoksyur_EN 0.098
  196. gendstat: EEHG WSHG 1.388
  197. gendstat: EEHG PPN 1.148
  198. gendstat: EEHG WEHG -0.050
  199. gendstat: EEHG Anatolia_N 0.624
  200. gendstat: EEHG Iran_GanjDareh_N 0.982
  201. gendstat: EEHG Russia_UstBelaya_Angara 0.348
  202. gendstat: EEHG ONG.SG -0.578
  203. gendstat: EEHG Russia_Steppe_Eneolithic 0.791
  204. gendstat: EEHG Kazakhstan_Kumsay_EBA 0.305
  205. gendstat: EEHG Botai -0.129
  206. gendstat: EEHG Geoksyur_EN 1.301
  207. gendstat: WSHG PPN -0.125
  208. gendstat: WSHG WEHG -1.304
  209. gendstat: WSHG Anatolia_N -0.708
  210. gendstat: WSHG Iran_GanjDareh_N -0.367
  211. gendstat: WSHG Russia_UstBelaya_Angara -1.053
  212. gendstat: WSHG ONG.SG -1.852
  213. gendstat: WSHG Russia_Steppe_Eneolithic -0.620
  214. gendstat: WSHG Kazakhstan_Kumsay_EBA -1.237
  215. gendstat: WSHG Botai -1.511
  216. gendstat: WSHG Geoksyur_EN -0.222
  217. gendstat: PPN WEHG -1.424
  218. gendstat: PPN Anatolia_N -0.914
  219. gendstat: PPN Iran_GanjDareh_N -0.277
  220. gendstat: PPN Russia_UstBelaya_Angara -0.875
  221. gendstat: PPN ONG.SG -1.768
  222. gendstat: PPN Russia_Steppe_Eneolithic -0.491
  223. gendstat: PPN Kazakhstan_Kumsay_EBA -0.943
  224. gendstat: PPN Botai -1.165
  225. gendstat: PPN Geoksyur_EN -0.099
  226. gendstat: WEHG Anatolia_N 0.884
  227. gendstat: WEHG Iran_GanjDareh_N 1.166
  228. gendstat: WEHG Russia_UstBelaya_Angara 0.398
  229. gendstat: WEHG ONG.SG -0.608
  230. gendstat: WEHG Russia_Steppe_Eneolithic 0.874
  231. gendstat: WEHG Kazakhstan_Kumsay_EBA 0.345
  232. gendstat: WEHG Botai -0.082
  233. gendstat: WEHG Geoksyur_EN 1.495
  234. gendstat: Anatolia_N Iran_GanjDareh_N 0.517
  235. gendstat: Anatolia_N Russia_UstBelaya_Angara -0.264
  236. gendstat: Anatolia_N ONG.SG -1.328
  237. gendstat: Anatolia_N Russia_Steppe_Eneolithic 0.178
  238. gendstat: Anatolia_N Kazakhstan_Kumsay_EBA -0.349
  239. gendstat: Anatolia_N Botai -0.649
  240. gendstat: Anatolia_N Geoksyur_EN 0.819
  241. gendstat: Iran_GanjDareh_N Russia_UstBelaya_Angara -0.690
  242. gendstat: Iran_GanjDareh_N ONG.SG -1.674
  243. gendstat: Iran_GanjDareh_N Russia_Steppe_Eneolithic -0.270
  244. gendstat: Iran_GanjDareh_N Kazakhstan_Kumsay_EBA -0.772
  245. gendstat: Iran_GanjDareh_N Botai -1.033
  246. gendstat: Iran_GanjDareh_N Geoksyur_EN 0.259
  247. gendstat: Russia_UstBelaya_Angara ONG.SG -1.118
  248. gendstat: Russia_UstBelaya_Angara Russia_Steppe_Eneolithic 0.418
  249. gendstat: Russia_UstBelaya_Angara Kazakhstan_Kumsay_EBA -0.084
  250. gendstat: Russia_UstBelaya_Angara Botai -0.520
  251. gendstat: Russia_UstBelaya_Angara Geoksyur_EN 0.948
  252. gendstat: ONG.SG Russia_Steppe_Eneolithic 1.387
  253. gendstat: ONG.SG Kazakhstan_Kumsay_EBA 0.957
  254. gendstat: ONG.SG Botai 0.459
  255. gendstat: ONG.SG Geoksyur_EN 2.001
  256. gendstat: Russia_Steppe_Eneolithic Kazakhstan_Kumsay_EBA -0.525
  257. gendstat: Russia_Steppe_Eneolithic Botai -0.861
  258. gendstat: Russia_Steppe_Eneolithic Geoksyur_EN 0.522
  259. gendstat: Kazakhstan_Kumsay_EBA Botai -0.443
  260. gendstat: Kazakhstan_Kumsay_EBA Geoksyur_EN 1.062
  261. gendstat: Botai Geoksyur_EN 1.287
  262.  
  263. ##end of qpAdm: 499.081 seconds cpu 1349.603 Mbytes in use
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