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misnomer001

steppe_en seh gabi fail

misnomer001
Feb 19th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1758845141
  4. read 1073741824 bytes
  5. read 1350149235 bytes
  6. packed geno read OK
  7. end of inpack
  8.  
  9. left pops:
  10. Steppe_Eneolithic
  11. Georgia_Kotias.SG
  12. Caucasus_Eneolithic
  13. Russia_Khvalynsk_EN
  14. Iran_Seh_Gabi_C
  15.  
  16. right pops:
  17. Mbuti.DG
  18. Russia_AfontovaGora3
  19. EEHG
  20. WEHG
  21. Anatolia_N
  22. Russia_Shamanka_EN.SG
  23. Onge.DG
  24. PPN
  25. China_Tianyuan
  26. Russia_MA1_HG
  27. Ust_Ishim.DG
  28. Georgia_Satsurblia.SG
  29. Ganj_Dareh_N
  30. WSHG
  31.  
  32. 0 Steppe_Eneolithic 3
  33. 1 Georgia_Kotias.SG 1
  34. 2 Caucasus_Eneolithic 3
  35. 3 Russia_Khvalynsk_EN 3
  36. 4 Iran_Seh_Gabi_C 5
  37. 5 Mbuti.DG 5
  38. 6 Russia_AfontovaGora3 1
  39. 7 EEHG 5
  40. 8 WEHG 36
  41. 9 Anatolia_N 23
  42. 10 Russia_Shamanka_EN.SG 10
  43. 11 Onge.DG 2
  44. 12 PPN 11
  45. 13 China_Tianyuan 1
  46. 14 Russia_MA1_HG 1
  47. 15 Ust_Ishim.DG 1
  48. 16 Georgia_Satsurblia.SG 1
  49. 17 Ganj_Dareh_N 8
  50. 18 WSHG 3
  51. jackknife block size: 0.050
  52. snps: 1150535 indivs: 123
  53. number of blocks for block jackknife: 552
  54. ## ncols: 1150535
  55. coverage: Steppe_Eneolithic 1017729
  56. coverage: Georgia_Kotias.SG 1149097
  57. coverage: Caucasus_Eneolithic 784983
  58. coverage: Russia_Khvalynsk_EN 758497
  59. coverage: Iran_Seh_Gabi_C 1026132
  60. coverage: Mbuti.DG 1150376
  61. coverage: Russia_AfontovaGora3 265583
  62. coverage: EEHG 1052093
  63. coverage: WEHG 1141246
  64. coverage: Anatolia_N 1136560
  65. coverage: Russia_Shamanka_EN.SG 1149998
  66. coverage: Onge.DG 1120748
  67. coverage: PPN 847771
  68. coverage: China_Tianyuan 885079
  69. coverage: Russia_MA1_HG 805960
  70. coverage: Ust_Ishim.DG 1062044
  71. coverage: Georgia_Satsurblia.SG 801311
  72. coverage: Ganj_Dareh_N 1057358
  73. coverage: WSHG 858019
  74. dof (jackknife): 466.011
  75. numsnps used: 1150535
  76. codimension 1
  77. f4info:
  78. f4rank: 3 dof: 10 chisq: 13.273 tail: 0.208811414 dofdiff: 12 chisqdiff: -13.273 taildiff: 1
  79. B:
  80. scale 1.000 1.000 1.000
  81. Russia_AfontovaGora3 0.948 0.481 -0.092
  82. EEHG 2.037 0.189 0.943
  83. WEHG 1.257 -0.073 1.876
  84. Anatolia_N -0.200 -1.018 1.008
  85. Russia_Shamanka_EN.SG 0.596 0.514 -0.733
  86. Onge.DG 0.357 0.143 -0.288
  87. PPN -0.247 -1.220 0.542
  88. China_Tianyuan 0.528 0.047 -0.384
  89. Russia_MA1_HG 1.279 0.368 -0.346
  90. Ust_Ishim.DG 0.264 0.166 -0.294
  91. Georgia_Satsurblia.SG -0.355 3.065 1.589
  92. Ganj_Dareh_N -0.302 -0.022 -1.758
  93. WSHG 1.894 0.598 -0.827
  94. A:
  95. scale 293.229 1172.943 2928.473
  96. Georgia_Kotias.SG -1.118 1.658 0.554
  97. Caucasus_Eneolithic -0.958 -0.586 1.810
  98. Russia_Khvalynsk_EN 0.687 -0.331 0.617
  99. Iran_Seh_Gabi_C -1.166 -0.893 -0.197
  100.  
  101.  
  102. full rank
  103. f4info:
  104. f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 10 chisqdiff: 13.273 taildiff: 0.208811414
  105. B:
  106. scale 253.881 288.868 453.867 229.886
  107. Russia_AfontovaGora3 -0.803 -1.011 0.776 -1.001
  108. EEHG -1.850 -1.803 2.233 -1.945
  109. WEHG -1.194 -0.871 1.453 -1.197
  110. Anatolia_N -0.163 0.501 -0.093 0.301
  111. Russia_Shamanka_EN.SG -0.429 -0.764 0.532 -0.626
  112. Onge.DG -0.349 -0.437 0.262 -0.400
  113. PPN -0.190 0.520 -0.108 0.411
  114. China_Tianyuan -0.564 -0.588 0.426 -0.534
  115. Russia_MA1_HG -1.259 -1.382 0.966 -1.346
  116. Ust_Ishim.DG -0.292 -0.361 0.105 -0.342
  117. Georgia_Satsurblia.SG 1.492 0.204 -0.716 -0.259
  118. Ganj_Dareh_N 0.149 -0.009 -0.582 0.273
  119. WSHG -1.704 -2.060 1.718 -1.901
  120. A:
  121. scale 2.000 2.000 2.000 2.000
  122. Georgia_Kotias.SG 2.000 0.000 0.000 0.000
  123. Caucasus_Eneolithic 0.000 2.000 0.000 0.000
  124. Russia_Khvalynsk_EN 0.000 0.000 2.000 0.000
  125. Iran_Seh_Gabi_C 0.000 0.000 0.000 2.000
  126.  
  127.  
  128. best coefficients: 0.237 -0.255 0.652 0.366
  129. Jackknife mean: 0.235625813 -0.244652554 0.650853446 0.358173296
  130. std. errors: 0.040 0.118 0.022 0.089
  131.  
  132. error covariance (* 1,000,000)
  133. 1567 -2247 59 621
  134. -2247 13895 -1866 -9781
  135. 59 -1866 499 1308
  136. 621 -9781 1308 7852
  137.  
  138.  
  139. summ: Steppe_Eneolithic 4 0.208811 0.236 -0.245 0.651 0.358 1567 -2247 59 621 13895 ...
  140. -1866 -9781 499 1308 7852
  141.  
  142. fixed pat wt dof chisq tail prob
  143. 0000 0 10 13.273 0.208811 0.237 -0.255 0.652 0.366 infeasible
  144. 0001 1 11 41.390 2.06484e-05 0.231 0.171 0.597 0.000
  145. 0010 1 11 89.731 1.88264e-14 -0.650 5.117 0.000 -3.467 infeasible
  146. 0100 1 11 21.142 0.031928 0.197 0.000 0.617 0.186
  147. 1000 1 11 60.262 8.28723e-09 0.000 -0.211 0.698 0.513 infeasible
  148. 0011 2 12 266.636 0 -49.959 50.959 0.000 0.000 infeasible
  149. 0101 2 12 57.020 7.83827e-08 0.382 0.000 0.618 0.000
  150. 0110 2 12 354.602 0 2.961 0.000 0.000 -1.961 infeasible
  151. 1001 2 12 80.454 3.38084e-12 0.000 0.401 0.599 0.000
  152. 1010 2 12 96.834 2.31618e-15 0.000 4.337 0.000 -3.337 infeasible
  153. 1100 2 12 61.947 9.94686e-09 0.000 0.000 0.662 0.338
  154. 0111 3 13 746.950 0 1.000 0.000 0.000 0.000
  155. 1011 3 13 795.498 0 0.000 1.000 0.000 0.000
  156. 1101 3 13 504.509 0 0.000 0.000 1.000 0.000
  157. 1110 3 13 1732.014 0 0.000 0.000 0.000 1.000
  158. best pat: 0000 0.208811 - -
  159. best pat: 0100 0.031928 chi(nested): 7.869 p-value for nested model: 0.00502827
  160. best pat: 1100 9.94686e-09 chi(nested): 40.805 p-value for nested model: 1.68227e-10
  161. best pat: 1101 1.61317e-99 chi(nested): 442.562 p-value for nested model: 3.00463e-98
  162.  
  163. coeffs: 0.237 -0.255 0.652 0.366
  164.  
  165. ## dscore:: f_4(Base, Fit, Rbase, right2)
  166. ## genstat:: f_4(Base, Fit, right1, right2)
  167.  
  168. details: Georgia_Kotias.SG Russia_AfontovaGora3 -0.003163 -12.758136
  169. details: Caucasus_Eneolithic Russia_AfontovaGora3 -0.003499 -13.080826
  170. details: Russia_Khvalynsk_EN Russia_AfontovaGora3 0.001709 7.239805
  171. details: Iran_Seh_Gabi_C Russia_AfontovaGora3 -0.004353 -21.072774
  172. dscore: Russia_AfontovaGora3 f4: -0.000337 Z: -1.673985
  173.  
  174. details: Georgia_Kotias.SG EEHG -0.007285 -15.989038
  175. details: Caucasus_Eneolithic EEHG -0.006243 -15.908929
  176. details: Russia_Khvalynsk_EN EEHG 0.004921 14.548794
  177. details: Iran_Seh_Gabi_C EEHG -0.008463 -26.116962
  178. dscore: EEHG f4: -0.000025 Z: -0.080683
  179.  
  180. details: Georgia_Kotias.SG WEHG -0.004702 -12.641434
  181. details: Caucasus_Eneolithic WEHG -0.003016 -8.740131
  182. details: Russia_Khvalynsk_EN WEHG 0.003201 10.709627
  183. details: Iran_Seh_Gabi_C WEHG -0.005205 -18.811889
  184. dscore: WEHG f4: -0.000165 Z: -0.621975
  185.  
  186. details: Georgia_Kotias.SG Anatolia_N -0.000641 -1.952606
  187. details: Caucasus_Eneolithic Anatolia_N 0.001735 5.671739
  188. details: Russia_Khvalynsk_EN Anatolia_N -0.000206 -0.841925
  189. details: Iran_Seh_Gabi_C Anatolia_N 0.001310 5.674485
  190. dscore: Anatolia_N f4: -0.000250 Z: -1.120063
  191.  
  192. details: Georgia_Kotias.SG Russia_Shamanka_EN.SG -0.001689 -4.752460
  193. details: Caucasus_Eneolithic Russia_Shamanka_EN.SG -0.002645 -8.001730
  194. details: Russia_Khvalynsk_EN Russia_Shamanka_EN.SG 0.001171 4.313007
  195. details: Iran_Seh_Gabi_C Russia_Shamanka_EN.SG -0.002723 -10.334868
  196. dscore: Russia_Shamanka_EN.SG f4: 0.000041 Z: 0.169521
  197.  
  198. details: Georgia_Kotias.SG Onge.DG -0.001374 -3.310059
  199. details: Caucasus_Eneolithic Onge.DG -0.001513 -4.231503
  200. details: Russia_Khvalynsk_EN Onge.DG 0.000577 1.953469
  201. details: Iran_Seh_Gabi_C Onge.DG -0.001740 -5.798299
  202. dscore: Onge.DG f4: -0.000200 Z: -0.728124
  203.  
  204. details: Georgia_Kotias.SG PPN -0.000747 -2.210369
  205. details: Caucasus_Eneolithic PPN 0.001801 5.430299
  206. details: Russia_Khvalynsk_EN PPN -0.000238 -0.851226
  207. details: Iran_Seh_Gabi_C PPN 0.001788 6.814047
  208. dscore: PPN f4: -0.000137 Z: -0.557955
  209.  
  210. details: Georgia_Kotias.SG China_Tianyuan -0.002223 -4.681784
  211. details: Caucasus_Eneolithic China_Tianyuan -0.002035 -4.660682
  212. details: Russia_Khvalynsk_EN China_Tianyuan 0.000939 2.601144
  213. details: Iran_Seh_Gabi_C China_Tianyuan -0.002323 -6.748938
  214. dscore: China_Tianyuan f4: -0.000246 Z: -0.765668
  215.  
  216. details: Georgia_Kotias.SG Russia_MA1_HG -0.004959 -10.404446
  217. details: Caucasus_Eneolithic Russia_MA1_HG -0.004784 -11.690100
  218. details: Russia_Khvalynsk_EN Russia_MA1_HG 0.002128 5.934127
  219. details: Iran_Seh_Gabi_C Russia_MA1_HG -0.005856 -17.062898
  220. dscore: Russia_MA1_HG f4: -0.000713 Z: -2.233994
  221.  
  222. details: Georgia_Kotias.SG Ust_Ishim.DG -0.001150 -2.592406
  223. details: Caucasus_Eneolithic Ust_Ishim.DG -0.001249 -3.226825
  224. details: Russia_Khvalynsk_EN Ust_Ishim.DG 0.000232 0.776888
  225. details: Iran_Seh_Gabi_C Ust_Ishim.DG -0.001488 -4.195836
  226. dscore: Ust_Ishim.DG f4: -0.000348 Z: -1.216148
  227.  
  228. details: Georgia_Kotias.SG Georgia_Satsurblia.SG 0.005878 11.725947
  229. details: Caucasus_Eneolithic Georgia_Satsurblia.SG 0.000706 1.803667
  230. details: Russia_Khvalynsk_EN Georgia_Satsurblia.SG -0.001577 -4.824538
  231. details: Iran_Seh_Gabi_C Georgia_Satsurblia.SG -0.001125 -3.673308
  232. dscore: Georgia_Satsurblia.SG f4: -0.000225 Z: -0.753132
  233.  
  234. details: Georgia_Kotias.SG Ganj_Dareh_N 0.000586 1.585104
  235. details: Caucasus_Eneolithic Ganj_Dareh_N -0.000031 -0.095397
  236. details: Russia_Khvalynsk_EN Ganj_Dareh_N -0.001282 -4.979257
  237. details: Iran_Seh_Gabi_C Ganj_Dareh_N 0.001187 4.467819
  238. dscore: Ganj_Dareh_N f4: -0.000255 Z: -1.057478
  239.  
  240. details: Georgia_Kotias.SG WSHG -0.006711 -16.208478
  241. details: Caucasus_Eneolithic WSHG -0.007132 -16.704217
  242. details: Russia_Khvalynsk_EN WSHG 0.003785 10.538016
  243. details: Iran_Seh_Gabi_C WSHG -0.008270 -24.590244
  244. dscore: WSHG f4: -0.000332 Z: -1.066944
  245.  
  246. gendstat: Mbuti.DG Russia_AfontovaGora3 -1.674
  247. gendstat: Mbuti.DG EEHG -0.081
  248. gendstat: Mbuti.DG WEHG -0.622
  249. gendstat: Mbuti.DG Anatolia_N -1.120
  250. gendstat: Mbuti.DG Russia_Shamanka_EN.SG 0.170
  251. gendstat: Mbuti.DG Onge.DG -0.728
  252. gendstat: Mbuti.DG PPN -0.558
  253. gendstat: Mbuti.DG China_Tianyuan -0.766
  254. gendstat: Mbuti.DG Russia_MA1_HG -2.234
  255. gendstat: Mbuti.DG Ust_Ishim.DG -1.216
  256. gendstat: Mbuti.DG Georgia_Satsurblia.SG -0.753
  257. gendstat: Mbuti.DG Ganj_Dareh_N -1.057
  258. gendstat: Mbuti.DG WSHG -1.067
  259. gendstat: Russia_AfontovaGora3 EEHG 0.995
  260. gendstat: Russia_AfontovaGora3 WEHG 0.591
  261. gendstat: Russia_AfontovaGora3 Anatolia_N 0.317
  262. gendstat: Russia_AfontovaGora3 Russia_Shamanka_EN.SG 1.376
  263. gendstat: Russia_AfontovaGora3 Onge.DG 0.434
  264. gendstat: Russia_AfontovaGora3 PPN 0.690
  265. gendstat: Russia_AfontovaGora3 China_Tianyuan 0.262
  266. gendstat: Russia_AfontovaGora3 Russia_MA1_HG -1.172
  267. gendstat: Russia_AfontovaGora3 Ust_Ishim.DG -0.033
  268. gendstat: Russia_AfontovaGora3 Georgia_Satsurblia.SG 0.322
  269. gendstat: Russia_AfontovaGora3 Ganj_Dareh_N 0.292
  270. gendstat: Russia_AfontovaGora3 WSHG 0.017
  271. gendstat: EEHG WEHG -0.544
  272. gendstat: EEHG Anatolia_N -0.785
  273. gendstat: EEHG Russia_Shamanka_EN.SG 0.227
  274. gendstat: EEHG Onge.DG -0.496
  275. gendstat: EEHG PPN -0.366
  276. gendstat: EEHG China_Tianyuan -0.602
  277. gendstat: EEHG Russia_MA1_HG -2.132
  278. gendstat: EEHG Ust_Ishim.DG -0.888
  279. gendstat: EEHG Georgia_Satsurblia.SG -0.512
  280. gendstat: EEHG Ganj_Dareh_N -0.724
  281. gendstat: EEHG WSHG -1.032
  282. gendstat: WEHG Anatolia_N -0.433
  283. gendstat: WEHG Russia_Shamanka_EN.SG 0.816
  284. gendstat: WEHG Onge.DG -0.117
  285. gendstat: WEHG PPN 0.113
  286. gendstat: WEHG China_Tianyuan -0.242
  287. gendstat: WEHG Russia_MA1_HG -1.694
  288. gendstat: WEHG Ust_Ishim.DG -0.589
  289. gendstat: WEHG Georgia_Satsurblia.SG -0.178
  290. gendstat: WEHG Ganj_Dareh_N -0.336
  291. gendstat: WEHG WSHG -0.567
  292. gendstat: Anatolia_N Russia_Shamanka_EN.SG 1.274
  293. gendstat: Anatolia_N Onge.DG 0.179
  294. gendstat: Anatolia_N PPN 0.593
  295. gendstat: Anatolia_N China_Tianyuan 0.011
  296. gendstat: Anatolia_N Russia_MA1_HG -1.433
  297. gendstat: Anatolia_N Ust_Ishim.DG -0.331
  298. gendstat: Anatolia_N Georgia_Satsurblia.SG 0.079
  299. gendstat: Anatolia_N Ganj_Dareh_N -0.023
  300. gendstat: Anatolia_N WSHG -0.271
  301. gendstat: Russia_Shamanka_EN.SG Onge.DG -0.976
  302. gendstat: Russia_Shamanka_EN.SG PPN -0.689
  303. gendstat: Russia_Shamanka_EN.SG China_Tianyuan -0.961
  304. gendstat: Russia_Shamanka_EN.SG Russia_MA1_HG -2.432
  305. gendstat: Russia_Shamanka_EN.SG Ust_Ishim.DG -1.377
  306. gendstat: Russia_Shamanka_EN.SG Georgia_Satsurblia.SG -0.799
  307. gendstat: Russia_Shamanka_EN.SG Ganj_Dareh_N -1.198
  308. gendstat: Russia_Shamanka_EN.SG WSHG -1.296
  309. gendstat: Onge.DG PPN 0.217
  310. gendstat: Onge.DG China_Tianyuan -0.133
  311. gendstat: Onge.DG Russia_MA1_HG -1.429
  312. gendstat: Onge.DG Ust_Ishim.DG -0.464
  313. gendstat: Onge.DG Georgia_Satsurblia.SG -0.068
  314. gendstat: Onge.DG Ganj_Dareh_N -0.189
  315. gendstat: Onge.DG WSHG -0.381
  316. gendstat: PPN China_Tianyuan -0.308
  317. gendstat: PPN Russia_MA1_HG -1.715
  318. gendstat: PPN Ust_Ishim.DG -0.669
  319. gendstat: PPN Georgia_Satsurblia.SG -0.261
  320. gendstat: PPN Ganj_Dareh_N -0.452
  321. gendstat: PPN WSHG -0.603
  322. gendstat: China_Tianyuan Russia_MA1_HG -1.208
  323. gendstat: China_Tianyuan Ust_Ishim.DG -0.287
  324. gendstat: China_Tianyuan Georgia_Satsurblia.SG 0.052
  325. gendstat: China_Tianyuan Ganj_Dareh_N -0.026
  326. gendstat: China_Tianyuan WSHG -0.241
  327. gendstat: Russia_MA1_HG Ust_Ishim.DG 0.980
  328. gendstat: Russia_MA1_HG Georgia_Satsurblia.SG 1.215
  329. gendstat: Russia_MA1_HG Ganj_Dareh_N 1.402
  330. gendstat: Russia_MA1_HG WSHG 1.212
  331. gendstat: Ust_Ishim.DG Georgia_Satsurblia.SG 0.329
  332. gendstat: Ust_Ishim.DG Ganj_Dareh_N 0.293
  333. gendstat: Ust_Ishim.DG WSHG 0.046
  334. gendstat: Georgia_Satsurblia.SG Ganj_Dareh_N -0.094
  335. gendstat: Georgia_Satsurblia.SG WSHG -0.279
  336. gendstat: Ganj_Dareh_N WSHG -0.245
  337.  
  338. ##end of qpAdm: 252.390 seconds cpu 1478.193 Mbytes in use
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