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misnomer001

chemurchek

misnomer001
Mar 29th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1785783967
  4. read 1073741824 bytes
  5. read 2146675633 bytes
  6. packed geno read OK
  7. end of inpack
  8.  
  9. left pops:
  10. Mongolia_EBA_2_Chemurchek
  11. Botai
  12. Geoksyur_EN
  13. Russia_Afanasievo
  14. Mongolia_N_North
  15.  
  16. right pops:
  17. Cameroon_SMA.DG
  18. EEHG
  19. WSHG
  20. PPN
  21. WEHG
  22. Anatolia_N
  23. Iran_GanjDareh_N
  24. CHG
  25. ONG.SG
  26. Boisman_MN
  27.  
  28. 0 Mongolia_EBA_2_Chemurchek 2
  29. 1 Botai 2
  30. 2 Geoksyur_EN 21
  31. 3 Russia_Afanasievo 23
  32. 4 Mongolia_N_North 7
  33. 5 Cameroon_SMA.DG 1
  34. 6 EEHG 5
  35. 7 WSHG 3
  36. 8 PPN 11
  37. 9 WEHG 33
  38. 10 Anatolia_N 22
  39. 11 Iran_GanjDareh_N 8
  40. 12 CHG 2
  41. 13 ONG.SG 6
  42. 14 Boisman_MN 12
  43. jackknife block size: 0.050
  44. snps: 1150509 indivs: 158
  45. number of blocks for block jackknife: 713
  46. ## ncols: 1150509
  47. coverage: Mongolia_EBA_2_Chemurchek 925265
  48. coverage: Botai 926654
  49. coverage: Geoksyur_EN 1020133
  50. coverage: Russia_Afanasievo 1122728
  51. coverage: Mongolia_N_North 1065135
  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: CHG 1149558
  60. coverage: ONG.SG 1143397
  61. coverage: Boisman_MN 1031750
  62. dof (jackknife): 620.998
  63. numsnps used: 1150509
  64. codimension 1
  65. f4info:
  66. f4rank: 3 dof: 6 chisq: 9.823 tail: 0.132294038 dofdiff: 8 chisqdiff: -9.823 taildiff: 1
  67. B:
  68. scale 1.000 1.000 1.000
  69. EEHG 1.194 1.372 0.279
  70. WSHG 0.963 1.807 -1.467
  71. PPN 0.646 -0.429 0.422
  72. WEHG 0.996 0.576 1.767
  73. Anatolia_N 0.758 -0.348 0.846
  74. Iran_GanjDareh_N 0.673 -0.916 -1.334
  75. CHG 0.812 -0.554 0.477
  76. ONG.SG -0.659 0.648 0.498
  77. Boisman_MN -1.765 1.284 0.707
  78. A:
  79. scale 257.648 405.497 1619.579
  80. Botai 0.108 1.057 -1.046
  81. Geoksyur_EN -0.147 -1.617 -0.755
  82. Russia_Afanasievo 0.306 -0.516 1.462
  83. Mongolia_N_North -1.968 -0.002 0.445
  84.  
  85.  
  86. full rank
  87. f4info:
  88. f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 6 chisqdiff: 9.823 taildiff: 0.132294038
  89. B:
  90. scale 356.406 250.009 511.870 131.011
  91. EEHG 1.364 -1.605 -0.051 -1.199
  92. WSHG 2.333 -1.705 -1.062 -0.978
  93. PPN -0.372 0.287 0.928 -0.628
  94. WEHG 0.428 -0.846 1.252 -0.889
  95. Anatolia_N -0.307 0.186 1.220 -0.703
  96. Iran_GanjDareh_N -0.310 1.028 0.561 -0.687
  97. CHG -0.413 0.417 1.198 -0.773
  98. ONG.SG 0.473 -0.577 -0.463 0.699
  99. Boisman_MN 0.889 -1.060 -1.410 1.836
  100. A:
  101. scale 2.000 2.000 2.000 2.000
  102. Botai 2.000 0.000 0.000 0.000
  103. Geoksyur_EN 0.000 2.000 0.000 0.000
  104. Russia_Afanasievo 0.000 0.000 2.000 0.000
  105. Mongolia_N_North 0.000 0.000 0.000 2.000
  106.  
  107.  
  108. best coefficients: 0.417 0.158 0.359 0.067
  109. Jackknife mean: 0.416464893 0.157334447 0.359291712 0.066908949
  110. std. errors: 0.026 0.026 0.040 0.011
  111.  
  112. error covariance (* 1,000,000)
  113. 685 337 -850 -172
  114. 337 695 -915 -116
  115. -850 -915 1607 158
  116. -172 -116 158 130
  117.  
  118.  
  119. summ: Mongolia_EBA_2_Chemurchek 4 0.132294 0.416 0.157 0.359 0.067 685 337 -850 -172 695 ...
  120. -915 -116 1607 158 130
  121.  
  122. fixed pat wt dof chisq tail prob
  123. 0000 0 6 9.823 0.132294 0.417 0.158 0.359 0.067
  124. 0001 1 7 40.448 1.03305e-06 0.509 0.217 0.274 0.000
  125. 0010 1 7 77.779 3.90528e-14 0.611 0.359 0.000 0.031
  126. 0100 1 7 45.858 9.31726e-08 0.354 0.000 0.556 0.090
  127. 1000 1 7 258.707 0 0.000 -0.058 0.882 0.175 infeasible
  128. 0011 2 8 84.737 5.41544e-15 0.638 0.362 0.000 0.000
  129. 0101 2 8 116.641 1.63488e-21 0.447 0.000 0.553 0.000
  130. 0110 2 8 587.519 0 0.965 0.000 0.000 0.035
  131. 1001 2 8 569.226 0 0.000 -0.004 1.004 0.000 infeasible
  132. 1010 2 8 1268.888 0 0.000 0.753 0.000 0.247
  133. 1100 2 8 265.561 0 0.000 0.000 0.830 0.170
  134. 0111 3 9 591.702 0 1.000 0.000 0.000 0.000
  135. 1011 3 9 1714.571 0 0.000 1.000 0.000 0.000
  136. 1101 3 9 567.187 0 0.000 0.000 1.000 0.000
  137. 1110 3 9 3793.772 0 0.000 0.000 0.000 1.000
  138. best pat: 0000 0.132294 - -
  139. best pat: 0001 1.03305e-06 chi(nested): 30.625 p-value for nested model: 3.13054e-08
  140. best pat: 0011 5.41544e-15 chi(nested): 44.289 p-value for nested model: 2.83302e-11
  141. best pat: 1101 2.29648e-116 not nested
  142.  
  143. coeffs: 0.417 0.158 0.359 0.067
  144.  
  145. ## dscore:: f_4(Base, Fit, Rbase, right2)
  146. ## genstat:: f_4(Base, Fit, right1, right2)
  147.  
  148. details: Botai EEHG 0.003826 10.851048
  149. details: Geoksyur_EN EEHG -0.006418 -19.598986
  150. details: Russia_Afanasievo EEHG -0.000099 -0.344380
  151. details: Mongolia_N_North EEHG -0.009151 -23.464941
  152. dscore: EEHG f4: -0.000066 Z: -0.237507
  153.  
  154. details: Botai WSHG 0.006547 16.200652
  155. details: Geoksyur_EN WSHG -0.006819 -19.189812
  156. details: Russia_Afanasievo WSHG -0.002075 -6.145663
  157. details: Mongolia_N_North WSHG -0.007462 -16.718204
  158. dscore: WSHG f4: 0.000408 Z: 1.252951
  159.  
  160. details: Botai PPN -0.001044 -3.199810
  161. details: Geoksyur_EN PPN 0.001147 3.938201
  162. details: Russia_Afanasievo PPN 0.001812 6.819686
  163. details: Mongolia_N_North PPN -0.004790 -13.885091
  164. dscore: PPN f4: 0.000075 Z: 0.289966
  165.  
  166. details: Botai WEHG 0.001201 3.751799
  167. details: Geoksyur_EN WEHG -0.003385 -11.659821
  168. details: Russia_Afanasievo WEHG 0.002447 9.240017
  169. details: Mongolia_N_North WEHG -0.006789 -18.578010
  170. dscore: WEHG f4: 0.000390 Z: 1.539969
  171.  
  172. details: Botai Anatolia_N -0.000860 -2.862274
  173. details: Geoksyur_EN Anatolia_N 0.000745 2.800543
  174. details: Russia_Afanasievo Anatolia_N 0.002384 9.941908
  175. details: Mongolia_N_North Anatolia_N -0.005363 -16.068893
  176. dscore: Anatolia_N f4: 0.000255 Z: 1.077337
  177.  
  178. details: Botai Iran_GanjDareh_N -0.000870 -2.786467
  179. details: Geoksyur_EN Iran_GanjDareh_N 0.004111 14.519551
  180. details: Russia_Afanasievo Iran_GanjDareh_N 0.001097 4.203117
  181. details: Mongolia_N_North Iran_GanjDareh_N -0.005241 -15.039608
  182. dscore: Iran_GanjDareh_N f4: 0.000328 Z: 1.313359
  183.  
  184. details: Botai CHG -0.001160 -3.254745
  185. details: Geoksyur_EN CHG 0.001668 5.204166
  186. details: Russia_Afanasievo CHG 0.002340 8.125849
  187. details: Mongolia_N_North CHG -0.005896 -14.678712
  188. dscore: CHG f4: 0.000224 Z: 0.790491
  189.  
  190. details: Botai ONG.SG 0.001326 4.192953
  191. details: Geoksyur_EN ONG.SG -0.002307 -7.932958
  192. details: Russia_Afanasievo ONG.SG -0.000905 -3.445134
  193. details: Mongolia_N_North ONG.SG 0.005339 15.536463
  194. dscore: ONG.SG f4: 0.000222 Z: 0.895663
  195.  
  196. details: Botai Boisman_MN 0.002494 7.330715
  197. details: Geoksyur_EN Boisman_MN -0.004238 -13.462194
  198. details: Russia_Afanasievo Boisman_MN -0.002754 -9.667510
  199. details: Mongolia_N_North Boisman_MN 0.014014 36.715211
  200. dscore: Boisman_MN f4: 0.000321 Z: 1.165901
  201.  
  202. gendstat: Cameroon_SMA.DG EEHG -0.238
  203. gendstat: Cameroon_SMA.DG WSHG 1.253
  204. gendstat: Cameroon_SMA.DG PPN 0.290
  205. gendstat: Cameroon_SMA.DG WEHG 1.540
  206. gendstat: Cameroon_SMA.DG Anatolia_N 1.077
  207. gendstat: Cameroon_SMA.DG Iran_GanjDareh_N 1.313
  208. gendstat: Cameroon_SMA.DG CHG 0.790
  209. gendstat: Cameroon_SMA.DG ONG.SG 0.896
  210. gendstat: Cameroon_SMA.DG Boisman_MN 1.166
  211. gendstat: EEHG WSHG 1.793
  212. gendstat: EEHG PPN 0.499
  213. gendstat: EEHG WEHG 2.067
  214. gendstat: EEHG Anatolia_N 1.312
  215. gendstat: EEHG Iran_GanjDareh_N 1.567
  216. gendstat: EEHG CHG 0.971
  217. gendstat: EEHG ONG.SG 1.022
  218. gendstat: EEHG Boisman_MN 1.318
  219. gendstat: WSHG PPN -1.061
  220. gendstat: WSHG WEHG -0.063
  221. gendstat: WSHG Anatolia_N -0.537
  222. gendstat: WSHG Iran_GanjDareh_N -0.266
  223. gendstat: WSHG CHG -0.556
  224. gendstat: WSHG ONG.SG -0.601
  225. gendstat: WSHG Boisman_MN -0.280
  226. gendstat: PPN WEHG 1.391
  227. gendstat: PPN Anatolia_N 1.047
  228. gendstat: PPN Iran_GanjDareh_N 1.030
  229. gendstat: PPN CHG 0.550
  230. gendstat: PPN ONG.SG 0.515
  231. gendstat: PPN Boisman_MN 0.846
  232. gendstat: WEHG Anatolia_N -0.779
  233. gendstat: WEHG Iran_GanjDareh_N -0.269
  234. gendstat: WEHG CHG -0.643
  235. gendstat: WEHG ONG.SG -0.670
  236. gendstat: WEHG Boisman_MN -0.253
  237. gendstat: Anatolia_N Iran_GanjDareh_N 0.372
  238. gendstat: Anatolia_N CHG -0.139
  239. gendstat: Anatolia_N ONG.SG -0.139
  240. gendstat: Anatolia_N Boisman_MN 0.249
  241. gendstat: Iran_GanjDareh_N CHG -0.432
  242. gendstat: Iran_GanjDareh_N ONG.SG -0.431
  243. gendstat: Iran_GanjDareh_N Boisman_MN -0.028
  244. gendstat: CHG ONG.SG -0.009
  245. gendstat: CHG Boisman_MN 0.316
  246. gendstat: ONG.SG Boisman_MN 0.420
  247.  
  248. ##end of qpAdm: 404.014 seconds cpu 1294.651 Mbytes in use
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