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misnomer001

kumsay vonyuchka allnsps yes fail

misnomer001
Feb 9th, 2020
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  1.  
  2. allsnps: YES
  3. ## qpAdm version: 1000
  4. seed: 1800326710
  5. read 1073741824 bytes
  6. read 1339052118 bytes
  7. packed geno read OK
  8. end of inpack
  9.  
  10. left pops:
  11. Kumsay_EBA
  12. Steppe_Eneolithic_VJ1001
  13. WSHG
  14.  
  15. right pops:
  16. Russia_MA1_HG
  17. EEHG
  18. WEHG
  19. Anatolia_N
  20. Russia_Shamanka_EN.SG
  21. Georgia_Satsurblia.SG
  22. Ganj_Dareh_N
  23. Onge.DG
  24. Russia_AfontovaGora3
  25. PPN
  26. Brazil_LapaDoSanto_9600BP
  27. China_Tianyuan
  28.  
  29. 0 Kumsay_EBA 4
  30. 1 Steppe_Eneolithic_VJ1001 1
  31. 2 WSHG 3
  32. 3 Russia_MA1_HG 1
  33. 4 EEHG 5
  34. 5 WEHG 36
  35. 6 Anatolia_N 23
  36. 7 Russia_Shamanka_EN.SG 10
  37. 8 Georgia_Satsurblia.SG 1
  38. 9 Ganj_Dareh_N 8
  39. 10 Onge.DG 2
  40. 11 Russia_AfontovaGora3 1
  41. 12 PPN 8
  42. 13 Brazil_LapaDoSanto_9600BP 5
  43. 14 China_Tianyuan 1
  44. jackknife block size: 0.050
  45. snps: 1150458 indivs: 109
  46. number of blocks for block jackknife: 552
  47. ## ncols: 1150458
  48. coverage: Kumsay_EBA 960872
  49. coverage: Steppe_Eneolithic_VJ1001 825542
  50. coverage: WSHG 858019
  51. coverage: Russia_MA1_HG 805960
  52. coverage: EEHG 1052093
  53. coverage: WEHG 1141246
  54. coverage: Anatolia_N 1136560
  55. coverage: Russia_Shamanka_EN.SG 1149998
  56. coverage: Georgia_Satsurblia.SG 801311
  57. coverage: Ganj_Dareh_N 1057358
  58. coverage: Onge.DG 1120748
  59. coverage: Russia_AfontovaGora3 265583
  60. coverage: PPN 835499
  61. coverage: Brazil_LapaDoSanto_9600BP 946991
  62. coverage: China_Tianyuan 885079
  63. dof (jackknife): 463.888
  64. numsnps used: 1150458
  65. codimension 1
  66. f4info:
  67. f4rank: 1 dof: 10 chisq: 24.402 tail: 0.00660162446 dofdiff: 12 chisqdiff: -24.402 taildiff: 1
  68. B:
  69. scale 1.000
  70. EEHG 0.127
  71. WEHG 1.016
  72. Anatolia_N 1.567
  73. Russia_Shamanka_EN.SG 0.371
  74. Georgia_Satsurblia.SG 1.431
  75. Ganj_Dareh_N 1.515
  76. Onge.DG 0.770
  77. Russia_AfontovaGora3 -0.226
  78. PPN 1.378
  79. Brazil_LapaDoSanto_9600BP 0.052
  80. China_Tianyuan 0.688
  81. A:
  82. scale 402.072
  83. Steppe_Eneolithic_VJ1001 1.135
  84. WSHG -0.844
  85.  
  86.  
  87. full rank
  88. f4info:
  89. f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 10 chisqdiff: 24.402 taildiff: 0.00660162446
  90. B:
  91. scale 330.962 490.472
  92. EEHG 0.296 0.045
  93. WEHG 1.199 -0.799
  94. Anatolia_N 1.569 -1.525
  95. Russia_Shamanka_EN.SG 0.343 -0.443
  96. Georgia_Satsurblia.SG 1.235 -1.587
  97. Ganj_Dareh_N 1.488 -1.507
  98. Onge.DG 0.679 -0.920
  99. Russia_AfontovaGora3 -0.166 0.288
  100. PPN 1.489 -1.252
  101. Brazil_LapaDoSanto_9600BP 0.025 -0.135
  102. China_Tianyuan 0.669 -0.731
  103. A:
  104. scale 1.414 1.414
  105. Steppe_Eneolithic_VJ1001 1.414 0.000
  106. WSHG 0.000 1.414
  107.  
  108.  
  109. best coefficients: 0.427 0.573
  110. Jackknife mean: 0.426261468 0.573738532
  111. std. errors: 0.022 0.022
  112.  
  113. error covariance (* 1,000,000)
  114. 466 -466
  115. -466 466
  116.  
  117.  
  118. summ: Kumsay_EBA 2 0.006602 0.426 0.574 466 -466 466
  119.  
  120. fixed pat wt dof chisq tail prob
  121. 00 0 10 24.402 0.00660162 0.427 0.573
  122. 01 1 11 386.912 0 1.000 0.000
  123. 10 1 11 327.172 0 0.000 1.000
  124. best pat: 00 0.00660162 - -
  125. best pat: 10 1.62373e-63 chi(nested): 302.770 p-value for nested model: 8.20901e-68
  126.  
  127. coeffs: 0.427 0.573
  128.  
  129. ## dscore:: f_4(Base, Fit, Rbase, right2)
  130. ## genstat:: f_4(Base, Fit, right1, right2)
  131.  
  132. details: Steppe_Eneolithic_VJ1001 EEHG 0.000895 2.297239
  133. details: WSHG EEHG 0.000093 0.292342
  134. dscore: EEHG f4: 0.000435 Z: 1.647401
  135.  
  136. details: Steppe_Eneolithic_VJ1001 WEHG 0.003623 8.924794
  137. details: WSHG WEHG -0.001629 -4.936898
  138. dscore: WEHG f4: 0.000611 Z: 2.221136
  139.  
  140. details: Steppe_Eneolithic_VJ1001 Anatolia_N 0.004741 11.477593
  141. details: WSHG Anatolia_N -0.003109 -9.254709
  142. dscore: Anatolia_N f4: 0.000240 Z: 0.861640
  143.  
  144. details: Steppe_Eneolithic_VJ1001 Russia_Shamanka_EN.SG 0.001036 2.511651
  145. details: WSHG Russia_Shamanka_EN.SG -0.000904 -2.619338
  146. dscore: Russia_Shamanka_EN.SG f4: -0.000076 Z: -0.261486
  147.  
  148. details: Steppe_Eneolithic_VJ1001 Georgia_Satsurblia.SG 0.003732 9.270912
  149. details: WSHG Georgia_Satsurblia.SG -0.003237 -10.045129
  150. dscore: Georgia_Satsurblia.SG f4: -0.000264 Z: -0.953266
  151.  
  152. details: Steppe_Eneolithic_VJ1001 Ganj_Dareh_N 0.004497 10.487275
  153. details: WSHG Ganj_Dareh_N -0.003072 -9.425539
  154. dscore: Ganj_Dareh_N f4: 0.000157 Z: 0.543612
  155.  
  156. details: Steppe_Eneolithic_VJ1001 Onge.DG 0.002052 4.820646
  157. details: WSHG Onge.DG -0.001875 -5.348519
  158. dscore: Onge.DG f4: -0.000200 Z: -0.684526
  159.  
  160. details: Steppe_Eneolithic_VJ1001 Russia_AfontovaGora3 -0.000502 -2.098275
  161. details: WSHG Russia_AfontovaGora3 0.000588 3.036319
  162. dscore: Russia_AfontovaGora3 f4: 0.000123 Z: 0.740664
  163.  
  164. details: Steppe_Eneolithic_VJ1001 PPN 0.004499 10.650644
  165. details: WSHG PPN -0.002553 -7.259076
  166. dscore: PPN f4: 0.000455 Z: 1.557438
  167.  
  168. details: Steppe_Eneolithic_VJ1001 Brazil_LapaDoSanto_9600BP 0.000075 0.178801
  169. details: WSHG Brazil_LapaDoSanto_9600BP -0.000275 -0.812418
  170. dscore: Brazil_LapaDoSanto_9600BP f4: -0.000126 Z: -0.441817
  171.  
  172. details: Steppe_Eneolithic_VJ1001 China_Tianyuan 0.002022 4.460694
  173. details: WSHG China_Tianyuan -0.001489 -3.928437
  174. dscore: China_Tianyuan f4: 0.000009 Z: 0.027104
  175.  
  176. gendstat: Russia_MA1_HG EEHG 1.647
  177. gendstat: Russia_MA1_HG WEHG 2.221
  178. gendstat: Russia_MA1_HG Anatolia_N 0.862
  179. gendstat: Russia_MA1_HG Russia_Shamanka_EN.SG -0.261
  180. gendstat: Russia_MA1_HG Georgia_Satsurblia.SG -0.953
  181. gendstat: Russia_MA1_HG Ganj_Dareh_N 0.544
  182. gendstat: Russia_MA1_HG Onge.DG -0.685
  183. gendstat: Russia_MA1_HG Russia_AfontovaGora3 0.741
  184. gendstat: Russia_MA1_HG PPN 1.557
  185. gendstat: Russia_MA1_HG Brazil_LapaDoSanto_9600BP -0.442
  186. gendstat: Russia_MA1_HG China_Tianyuan 0.027
  187. gendstat: EEHG WEHG 0.942
  188. gendstat: EEHG Anatolia_N -0.977
  189. gendstat: EEHG Russia_Shamanka_EN.SG -2.163
  190. gendstat: EEHG Georgia_Satsurblia.SG -2.514
  191. gendstat: EEHG Ganj_Dareh_N -1.281
  192. gendstat: EEHG Onge.DG -2.524
  193. gendstat: EEHG Russia_AfontovaGora3 -1.172
  194. gendstat: EEHG PPN 0.082
  195. gendstat: EEHG Brazil_LapaDoSanto_9600BP -2.355
  196. gendstat: EEHG China_Tianyuan -1.536
  197. gendstat: WEHG Anatolia_N -2.484
  198. gendstat: WEHG Russia_Shamanka_EN.SG -3.368
  199. gendstat: WEHG Georgia_Satsurblia.SG -3.410
  200. gendstat: WEHG Ganj_Dareh_N -2.316
  201. gendstat: WEHG Onge.DG -3.516
  202. gendstat: WEHG Russia_AfontovaGora3 -1.751
  203. gendstat: WEHG PPN -0.738
  204. gendstat: WEHG Brazil_LapaDoSanto_9600BP -3.055
  205. gendstat: WEHG China_Tianyuan -2.349
  206. gendstat: Anatolia_N Russia_Shamanka_EN.SG -1.520
  207. gendstat: Anatolia_N Georgia_Satsurblia.SG -2.229
  208. gendstat: Anatolia_N Ganj_Dareh_N -0.483
  209. gendstat: Anatolia_N Onge.DG -2.001
  210. gendstat: Anatolia_N Russia_AfontovaGora3 -0.412
  211. gendstat: Anatolia_N PPN 1.282
  212. gendstat: Anatolia_N Brazil_LapaDoSanto_9600BP -1.569
  213. gendstat: Anatolia_N China_Tianyuan -0.869
  214. gendstat: Russia_Shamanka_EN.SG Georgia_Satsurblia.SG -0.666
  215. gendstat: Russia_Shamanka_EN.SG Ganj_Dareh_N 1.040
  216. gendstat: Russia_Shamanka_EN.SG Onge.DG -0.580
  217. gendstat: Russia_Shamanka_EN.SG Russia_AfontovaGora3 0.675
  218. gendstat: Russia_Shamanka_EN.SG PPN 2.112
  219. gendstat: Russia_Shamanka_EN.SG Brazil_LapaDoSanto_9600BP -0.238
  220. gendstat: Russia_Shamanka_EN.SG China_Tianyuan 0.359
  221. gendstat: Georgia_Satsurblia.SG Ganj_Dareh_N 1.704
  222. gendstat: Georgia_Satsurblia.SG Onge.DG 0.241
  223. gendstat: Georgia_Satsurblia.SG Russia_AfontovaGora3 1.308
  224. gendstat: Georgia_Satsurblia.SG PPN 2.790
  225. gendstat: Georgia_Satsurblia.SG Brazil_LapaDoSanto_9600BP 0.482
  226. gendstat: Georgia_Satsurblia.SG China_Tianyuan 0.850
  227. gendstat: Ganj_Dareh_N Onge.DG -1.533
  228. gendstat: Ganj_Dareh_N Russia_AfontovaGora3 -0.119
  229. gendstat: Ganj_Dareh_N PPN 1.382
  230. gendstat: Ganj_Dareh_N Brazil_LapaDoSanto_9600BP -1.167
  231. gendstat: Ganj_Dareh_N China_Tianyuan -0.532
  232. gendstat: Onge.DG Russia_AfontovaGora3 1.104
  233. gendstat: Onge.DG PPN 2.613
  234. gendstat: Onge.DG Brazil_LapaDoSanto_9600BP 0.338
  235. gendstat: Onge.DG China_Tianyuan 0.779
  236. gendstat: Russia_AfontovaGora3 PPN 1.101
  237. gendstat: Russia_AfontovaGora3 Brazil_LapaDoSanto_9600BP -0.880
  238. gendstat: Russia_AfontovaGora3 China_Tianyuan -0.363
  239. gendstat: PPN Brazil_LapaDoSanto_9600BP -2.183
  240. gendstat: PPN China_Tianyuan -1.546
  241. gendstat: Brazil_LapaDoSanto_9600BP China_Tianyuan 0.509
  242.  
  243. ##end of qpAdm: 227.884 seconds cpu 1293.509 Mbytes in use
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