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misnomer001

steppe eneolithic eehg + chg wang fail

misnomer001
Jan 30th, 2020
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  1. qpAdm: parameter file: /home/ash/Downloads/results/wang2019/qpAdm__1881391850.par
  2. ### THE INPUT PARAMETERS
  3. allsnps: YES
  4. ## qpAdm version: 1000
  5. seed: 1927741158
  6.  
  7. left pops:
  8. Steppe_Eneolithic
  9. EEHG
  10. CHG
  11.  
  12. right pops:
  13. Mbuti.DG
  14. Ust_Ishim.DG
  15. Kostenki14.SG
  16. Russia_MA1.SG
  17. Han.DG
  18. Papuan.DG
  19. Onge.DG
  20. Italy_Villabruna
  21. Czech_Vestonice16
  22. Iberia_ElMiron
  23. Ethiopia_4500BP.SG
  24. Karitiana.DG
  25. Natufian
  26. Ganj_Dareh_N
  27.  
  28. 0 Steppe_Eneolithic 3
  29. 1 EEHG 4
  30. 2 CHG 2
  31. 3 Mbuti.DG 5
  32. 4 Ust_Ishim.DG 1
  33. 5 Kostenki14.SG 1
  34. 6 Russia_MA1.SG 1
  35. 7 Han.DG 4
  36. 8 Papuan.DG 15
  37. 9 Onge.DG 2
  38. 10 Italy_Villabruna 1
  39. 11 Czech_Vestonice16 1
  40. 12 Iberia_ElMiron 1
  41. 13 Ethiopia_4500BP.SG 1
  42. 14 Karitiana.DG 4
  43. 15 Natufian 6
  44. 16 Ganj_Dareh_N 7
  45. jackknife block size: 0.050
  46. snps: 1150542 indivs: 59
  47. number of blocks for block jackknife: 552
  48. ## ncols: 1150542
  49. coverage: Steppe_Eneolithic 1017729
  50. coverage: EEHG 1029995
  51. coverage: CHG 1149558
  52. coverage: Mbuti.DG 1150376
  53. coverage: Ust_Ishim.DG 1062044
  54. coverage: Kostenki14.SG 1048972
  55. coverage: Russia_MA1.SG 805960
  56. coverage: Han.DG 1150414
  57. coverage: Papuan.DG 1121459
  58. coverage: Onge.DG 1120748
  59. coverage: Italy_Villabruna 883779
  60. coverage: Czech_Vestonice16 732091
  61. coverage: Iberia_ElMiron 626974
  62. coverage: Ethiopia_4500BP.SG 1149598
  63. coverage: Karitiana.DG 1150373
  64. coverage: Natufian 535079
  65. coverage: Ganj_Dareh_N 1029695
  66. dof (jackknife): 467.074
  67. numsnps used: 1150542
  68. codimension 1
  69. f4info:
  70. f4rank: 1 dof: 12 chisq: 37.038 tail: 0.00022029144 dofdiff: 14 chisqdiff: -37.038 taildiff: 1
  71. B:
  72. scale 1.000
  73. Ust_Ishim.DG 0.248
  74. Kostenki14.SG 0.774
  75. Russia_MA1.SG 1.770
  76. Han.DG 0.651
  77. Papuan.DG 0.425
  78. Onge.DG 0.503
  79. Italy_Villabruna 1.688
  80. Czech_Vestonice16 0.988
  81. Iberia_ElMiron 1.069
  82. Ethiopia_4500BP.SG -0.020
  83. Karitiana.DG 1.701
  84. Natufian 0.066
  85. Ganj_Dareh_N -0.696
  86. A:
  87. scale 421.697
  88. EEHG 1.105
  89. CHG -0.882
  90.  
  91.  
  92. full rank
  93. f4info:
  94. f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 12 chisqdiff: 37.038 taildiff: 0.00022029144
  95. B:
  96. scale 418.226 380.604
  97. Ust_Ishim.DG 0.155 -0.403
  98. Kostenki14.SG 0.793 -0.788
  99. Russia_MA1.SG 1.483 -1.965
  100. Han.DG 0.636 -0.683
  101. Papuan.DG 0.288 -0.623
  102. Onge.DG 0.402 -0.588
  103. Italy_Villabruna 1.797 -1.575
  104. Czech_Vestonice16 1.061 -0.896
  105. Iberia_ElMiron 0.975 -1.130
  106. Ethiopia_4500BP.SG -0.087 -0.059
  107. Karitiana.DG 1.672 -1.593
  108. Natufian -0.050 -0.234
  109. Ganj_Dareh_N -1.179 0.027
  110. A:
  111. scale 1.414 1.414
  112. EEHG 1.414 0.000
  113. CHG 0.000 1.414
  114.  
  115.  
  116. best coefficients: 0.444 0.556
  117. Jackknife mean: 0.444199186 0.555800814
  118. std. errors: 0.021 0.021
  119.  
  120. error covariance (* 1,000,000)
  121. 452 -452
  122. -452 452
  123.  
  124.  
  125. summ: Steppe_Eneolithic 2 0.000220 0.444 0.556 452 -452 452
  126.  
  127. fixed pat wt dof chisq tail prob
  128. 00 0 12 37.038 0.000220291 0.444 0.556
  129. 01 1 13 535.180 0 1.000 0.000
  130. 10 1 13 313.523 0 0.000 1.000
  131. best pat: 00 0.000220291 - -
  132. best pat: 10 3.54269e-59 chi(nested): 276.485 p-value for nested model: 4.38013e-62
  133.  
  134. coeffs: 0.444 0.556
  135.  
  136. ## dscore:: f_4(Base, Fit, Rbase, right2)
  137. ## genstat:: f_4(Base, Fit, right1, right2)
  138.  
  139. details: EEHG Ust_Ishim.DG 0.000370 1.031275
  140. details: CHG Ust_Ishim.DG -0.001060 -2.781484
  141. dscore: Ust_Ishim.DG f4: -0.000425 Z: -1.435758
  142.  
  143. details: EEHG Kostenki14.SG 0.001897 4.725051
  144. details: CHG Kostenki14.SG -0.002070 -5.017630
  145. dscore: Kostenki14.SG f4: -0.000309 Z: -0.955595
  146.  
  147. details: EEHG Russia_MA1.SG 0.003546 9.183861
  148. details: CHG Russia_MA1.SG -0.005162 -12.299304
  149. dscore: Russia_MA1.SG f4: -0.001296 Z: -4.073125
  150.  
  151. details: EEHG Han.DG 0.001522 5.153214
  152. details: CHG Han.DG -0.001794 -5.621709
  153. dscore: Han.DG f4: -0.000322 Z: -1.321889
  154.  
  155. details: EEHG Papuan.DG 0.000689 2.154877
  156. details: CHG Papuan.DG -0.001638 -4.934793
  157. dscore: Papuan.DG f4: -0.000605 Z: -2.346155
  158.  
  159. details: EEHG Onge.DG 0.000961 2.858120
  160. details: CHG Onge.DG -0.001544 -4.377778
  161. dscore: Onge.DG f4: -0.000432 Z: -1.558213
  162.  
  163. details: EEHG Italy_Villabruna 0.004296 10.633796
  164. details: CHG Italy_Villabruna -0.004139 -10.050014
  165. dscore: Italy_Villabruna f4: -0.000394 Z: -1.222124
  166.  
  167. details: EEHG Czech_Vestonice16 0.002537 7.161599
  168. details: CHG Czech_Vestonice16 -0.002354 -6.457886
  169. dscore: Czech_Vestonice16 f4: -0.000183 Z: -0.633677
  170.  
  171. details: EEHG Iberia_ElMiron 0.002331 7.534389
  172. details: CHG Iberia_ElMiron -0.002968 -8.818643
  173. dscore: Iberia_ElMiron f4: -0.000616 Z: -2.362619
  174.  
  175. details: EEHG Ethiopia_4500BP.SG -0.000209 -0.821500
  176. details: CHG Ethiopia_4500BP.SG -0.000155 -0.545364
  177. dscore: Ethiopia_4500BP.SG f4: -0.000179 Z: -0.821030
  178.  
  179. details: EEHG Karitiana.DG 0.003997 10.848420
  180. details: CHG Karitiana.DG -0.004185 -11.427133
  181. dscore: Karitiana.DG f4: -0.000553 Z: -1.913187
  182.  
  183. details: EEHG Natufian -0.000119 -0.454410
  184. details: CHG Natufian -0.000615 -2.477517
  185. dscore: Natufian f4: -0.000395 Z: -1.921733
  186.  
  187. details: EEHG Ganj_Dareh_N -0.002818 -9.066920
  188. details: CHG Ganj_Dareh_N 0.000071 0.216580
  189. dscore: Ganj_Dareh_N f4: -0.001212 Z: -4.695397
  190.  
  191. gendstat: Mbuti.DG Ust_Ishim.DG -1.436
  192. gendstat: Mbuti.DG Kostenki14.SG -0.956
  193. gendstat: Mbuti.DG Russia_MA1.SG -4.073
  194. gendstat: Mbuti.DG Han.DG -1.322
  195. gendstat: Mbuti.DG Papuan.DG -2.346
  196. gendstat: Mbuti.DG Onge.DG -1.558
  197. gendstat: Mbuti.DG Italy_Villabruna -1.222
  198. gendstat: Mbuti.DG Czech_Vestonice16 -0.634
  199. gendstat: Mbuti.DG Iberia_ElMiron -2.363
  200. gendstat: Mbuti.DG Ethiopia_4500BP.SG -0.821
  201. gendstat: Mbuti.DG Karitiana.DG -1.913
  202. gendstat: Mbuti.DG Natufian -1.922
  203. gendstat: Mbuti.DG Ganj_Dareh_N -4.695
  204. gendstat: Ust_Ishim.DG Kostenki14.SG 0.313
  205. gendstat: Ust_Ishim.DG Russia_MA1.SG -2.292
  206. gendstat: Ust_Ishim.DG Han.DG 0.335
  207. gendstat: Ust_Ishim.DG Papuan.DG -0.583
  208. gendstat: Ust_Ishim.DG Onge.DG -0.020
  209. gendstat: Ust_Ishim.DG Italy_Villabruna 0.082
  210. gendstat: Ust_Ishim.DG Czech_Vestonice16 0.678
  211. gendstat: Ust_Ishim.DG Iberia_ElMiron -0.554
  212. gendstat: Ust_Ishim.DG Ethiopia_4500BP.SG 0.709
  213. gendstat: Ust_Ishim.DG Karitiana.DG -0.357
  214. gendstat: Ust_Ishim.DG Natufian 0.093
  215. gendstat: Ust_Ishim.DG Ganj_Dareh_N -2.423
  216. gendstat: Kostenki14.SG Russia_MA1.SG -2.621
  217. gendstat: Kostenki14.SG Han.DG -0.043
  218. gendstat: Kostenki14.SG Papuan.DG -0.902
  219. gendstat: Kostenki14.SG Onge.DG -0.365
  220. gendstat: Kostenki14.SG Italy_Villabruna -0.232
  221. gendstat: Kostenki14.SG Czech_Vestonice16 0.360
  222. gendstat: Kostenki14.SG Iberia_ElMiron -0.904
  223. gendstat: Kostenki14.SG Ethiopia_4500BP.SG 0.356
  224. gendstat: Kostenki14.SG Karitiana.DG -0.711
  225. gendstat: Kostenki14.SG Natufian -0.262
  226. gendstat: Kostenki14.SG Ganj_Dareh_N -2.686
  227. gendstat: Russia_MA1.SG Han.DG 3.046
  228. gendstat: Russia_MA1.SG Papuan.DG 2.034
  229. gendstat: Russia_MA1.SG Onge.DG 2.468
  230. gendstat: Russia_MA1.SG Italy_Villabruna 2.414
  231. gendstat: Russia_MA1.SG Czech_Vestonice16 3.132
  232. gendstat: Russia_MA1.SG Iberia_ElMiron 1.934
  233. gendstat: Russia_MA1.SG Ethiopia_4500BP.SG 3.063
  234. gendstat: Russia_MA1.SG Karitiana.DG 2.194
  235. gendstat: Russia_MA1.SG Natufian 2.671
  236. gendstat: Russia_MA1.SG Ganj_Dareh_N 0.251
  237. gendstat: Han.DG Papuan.DG -1.190
  238. gendstat: Han.DG Onge.DG -0.434
  239. gendstat: Han.DG Italy_Villabruna -0.214
  240. gendstat: Han.DG Czech_Vestonice16 0.461
  241. gendstat: Han.DG Iberia_ElMiron -0.954
  242. gendstat: Han.DG Ethiopia_4500BP.SG 0.506
  243. gendstat: Han.DG Karitiana.DG -0.949
  244. gendstat: Han.DG Natufian -0.275
  245. gendstat: Han.DG Ganj_Dareh_N -3.209
  246. gendstat: Papuan.DG Onge.DG 0.634
  247. gendstat: Papuan.DG Italy_Villabruna 0.584
  248. gendstat: Papuan.DG Czech_Vestonice16 1.350
  249. gendstat: Papuan.DG Iberia_ElMiron -0.035
  250. gendstat: Papuan.DG Ethiopia_4500BP.SG 1.390
  251. gendstat: Papuan.DG Karitiana.DG 0.175
  252. gendstat: Papuan.DG Natufian 0.751
  253. gendstat: Papuan.DG Ganj_Dareh_N -2.045
  254. gendstat: Onge.DG Italy_Villabruna 0.100
  255. gendstat: Onge.DG Czech_Vestonice16 0.739
  256. gendstat: Onge.DG Iberia_ElMiron -0.560
  257. gendstat: Onge.DG Ethiopia_4500BP.SG 0.803
  258. gendstat: Onge.DG Karitiana.DG -0.383
  259. gendstat: Onge.DG Natufian 0.126
  260. gendstat: Onge.DG Ganj_Dareh_N -2.586
  261. gendstat: Italy_Villabruna Czech_Vestonice16 0.576
  262. gendstat: Italy_Villabruna Iberia_ElMiron -0.640
  263. gendstat: Italy_Villabruna Ethiopia_4500BP.SG 0.591
  264. gendstat: Italy_Villabruna Karitiana.DG -0.434
  265. gendstat: Italy_Villabruna Natufian -0.002
  266. gendstat: Italy_Villabruna Ganj_Dareh_N -2.386
  267. gendstat: Czech_Vestonice16 Iberia_ElMiron -1.363
  268. gendstat: Czech_Vestonice16 Ethiopia_4500BP.SG 0.012
  269. gendstat: Czech_Vestonice16 Karitiana.DG -1.058
  270. gendstat: Czech_Vestonice16 Natufian -0.699
  271. gendstat: Czech_Vestonice16 Ganj_Dareh_N -3.059
  272. gendstat: Iberia_ElMiron Ethiopia_4500BP.SG 1.410
  273. gendstat: Iberia_ElMiron Karitiana.DG 0.188
  274. gendstat: Iberia_ElMiron Natufian 0.789
  275. gendstat: Iberia_ElMiron Ganj_Dareh_N -1.822
  276. gendstat: Ethiopia_4500BP.SG Karitiana.DG -1.100
  277. gendstat: Ethiopia_4500BP.SG Natufian -0.769
  278. gendstat: Ethiopia_4500BP.SG Ganj_Dareh_N -3.306
  279. gendstat: Karitiana.DG Natufian 0.506
  280. gendstat: Karitiana.DG Ganj_Dareh_N -2.078
  281. gendstat: Natufian Ganj_Dareh_N -3.013
  282.  
  283. ##end of qpAdm: 1115.576 seconds cpu 1385.488 Mbytes in use
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