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misnomer001

steppe eneolithic pass

misnomer001
Feb 17th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 2060701418
  4. read 1073741824 bytes
  5. read 1339052118 bytes
  6. packed geno read OK
  7. end of inpack
  8.  
  9. left pops:
  10. Steppe_Eneolithic
  11. Georgia_Kotias.SG
  12. Geoksyur_EN
  13. Russia_Khvalynsk_EN
  14. Caucasus_Eneolithic
  15.  
  16. right pops:
  17. Russia_MA1_HG
  18. WEHG
  19. WSHG
  20. EEHG
  21. Anatolia_N
  22. Russia_Shamanka_EN.SG
  23. Georgia_Satsurblia.SG
  24. Ganj_Dareh_N
  25. Onge.DG
  26. PPN
  27.  
  28. 0 Steppe_Eneolithic 3
  29. 1 Georgia_Kotias.SG 1
  30. 2 Geoksyur_EN 21
  31. 3 Russia_Khvalynsk_EN 3
  32. 4 Caucasus_Eneolithic 3
  33. 5 Russia_MA1_HG 1
  34. 6 WEHG 36
  35. 7 WSHG 3
  36. 8 EEHG 5
  37. 9 Anatolia_N 23
  38. 10 Russia_Shamanka_EN.SG 10
  39. 11 Georgia_Satsurblia.SG 1
  40. 12 Ganj_Dareh_N 8
  41. 13 Onge.DG 2
  42. 14 PPN 8
  43. jackknife block size: 0.050
  44. snps: 1150461 indivs: 128
  45. number of blocks for block jackknife: 552
  46. ## ncols: 1150461
  47. coverage: Steppe_Eneolithic 1017729
  48. coverage: Georgia_Kotias.SG 1149097
  49. coverage: Geoksyur_EN 1018577
  50. coverage: Russia_Khvalynsk_EN 758497
  51. coverage: Caucasus_Eneolithic 784983
  52. coverage: Russia_MA1_HG 805960
  53. coverage: WEHG 1141246
  54. coverage: WSHG 858019
  55. coverage: EEHG 1052093
  56. coverage: Anatolia_N 1136560
  57. coverage: Russia_Shamanka_EN.SG 1149998
  58. coverage: Georgia_Satsurblia.SG 801311
  59. coverage: Ganj_Dareh_N 1057358
  60. coverage: Onge.DG 1120748
  61. coverage: PPN 835499
  62. dof (jackknife): 467.345
  63. numsnps used: 1150461
  64. codimension 1
  65. f4info:
  66. f4rank: 3 dof: 6 chisq: 10.448 tail: 0.107022285 dofdiff: 8 chisqdiff: -10.448 taildiff: 1
  67. B:
  68. scale 1.000 1.000 1.000
  69. WEHG 0.206 0.355 1.454
  70. WSHG -0.383 0.056 -0.168
  71. EEHG -0.453 0.475 1.010
  72. Anatolia_N 1.313 -0.591 0.996
  73. Russia_Shamanka_EN.SG 0.728 0.133 -0.439
  74. Georgia_Satsurblia.SG 1.395 2.276 -0.022
  75. Ganj_Dareh_N 1.439 -1.409 -2.025
  76. Onge.DG 0.905 -0.244 -0.351
  77. PPN 1.231 -1.026 0.657
  78. A:
  79. scale 325.869 1442.441 1749.044
  80. Georgia_Kotias.SG 1.259 1.655 -0.661
  81. Geoksyur_EN 0.817 -0.897 -1.148
  82. Russia_Khvalynsk_EN -0.706 0.126 0.203
  83. Caucasus_Eneolithic 1.117 -0.664 1.484
  84.  
  85.  
  86. full rank
  87. f4info:
  88. f4rank: 4 dof: 0 chisq: 0.000 tail: 1 dofdiff: 6 chisqdiff: 10.448 taildiff: 0.107022285
  89. B:
  90. scale 233.578 314.887 534.549 259.318
  91. WEHG 0.275 -0.061 0.257 0.602
  92. WSHG -0.263 -0.225 0.546 -0.309
  93. EEHG -0.244 -0.525 0.952 -0.113
  94. Anatolia_N 1.041 1.077 -1.204 1.587
  95. Russia_Shamanka_EN.SG 0.847 0.775 -0.583 0.678
  96. Georgia_Satsurblia.SG 1.973 0.785 -1.323 1.049
  97. Ganj_Dareh_N 1.229 1.990 -1.541 1.163
  98. Onge.DG 0.891 0.968 -0.779 0.887
  99. PPN 0.894 1.182 -1.100 1.520
  100. A:
  101. scale 2.000 2.000 2.000 2.000
  102. Georgia_Kotias.SG 2.000 0.000 0.000 0.000
  103. Geoksyur_EN 0.000 2.000 0.000 0.000
  104. Russia_Khvalynsk_EN 0.000 0.000 2.000 0.000
  105. Caucasus_Eneolithic 0.000 0.000 0.000 2.000
  106.  
  107.  
  108. best coefficients: 0.105 0.192 0.589 0.114
  109. Jackknife mean: 0.104932888 0.191496390 0.589590069 0.113980654
  110. std. errors: 0.037 0.034 0.017 0.042
  111.  
  112. error covariance (* 1,000,000)
  113. 1368 -447 -21 -900
  114. -447 1155 -63 -645
  115. -21 -63 274 -191
  116. -900 -645 -191 1736
  117.  
  118.  
  119. summ: Steppe_Eneolithic 4 0.107022 0.105 0.191 0.590 0.114 1368 -447 -21 -900 1155 ...
  120. -63 -645 274 -191 1736
  121.  
  122. fixed pat wt dof chisq tail prob
  123. 0000 0 6 10.448 0.107022 0.105 0.192 0.589 0.114
  124. 0001 1 7 18.001 0.0119656 0.161 0.236 0.603 0.000
  125. 0010 1 7 256.423 0 -29.201 8.091 0.000 22.110 infeasible
  126. 0100 1 7 41.060 7.8833e-07 0.189 0.000 0.601 0.210
  127. 1000 1 7 18.681 0.00924746 0.000 0.228 0.593 0.179
  128. 0011 2 8 355.357 0 7.709 -6.709 0.000 0.000 infeasible
  129. 0101 2 8 60.191 4.27602e-10 0.372 0.000 0.628 0.000
  130. 0110 2 8 269.263 0 -19.142 0.000 0.000 20.142 infeasible
  131. 1001 2 8 42.585 1.05078e-06 0.000 0.375 0.625 0.000
  132. 1010 2 8 414.030 0 0.000 -4.634 0.000 5.634 infeasible
  133. 1100 2 8 62.787 1.3195e-10 0.000 0.000 0.605 0.395
  134. 0111 3 9 670.380 0 1.000 0.000 0.000 0.000
  135. 1011 3 9 1084.911 0 0.000 1.000 0.000 0.000
  136. 1101 3 9 435.905 0 0.000 0.000 1.000 0.000
  137. 1110 3 9 758.777 0 0.000 0.000 0.000 1.000
  138. best pat: 0000 0.107022 - -
  139. best pat: 1000 0.00924746 chi(nested): 8.233 p-value for nested model: 0.00411269
  140. best pat: 1001 1.05078e-06 chi(nested): 23.904 p-value for nested model: 1.01248e-06
  141. best pat: 1101 2.95153e-88 chi(nested): 393.320 p-value for nested model: 1.56739e-87
  142.  
  143. coeffs: 0.105 0.192 0.589 0.114
  144.  
  145. ## dscore:: f_4(Base, Fit, Rbase, right2)
  146. ## genstat:: f_4(Base, Fit, right1, right2)
  147.  
  148. details: Georgia_Kotias.SG WEHG 0.001177 2.875769
  149. details: Geoksyur_EN WEHG -0.000192 -0.702157
  150. details: Russia_Khvalynsk_EN WEHG 0.000480 1.453955
  151. details: Caucasus_Eneolithic WEHG 0.002322 6.528549
  152. dscore: WEHG f4: 0.000635 Z: 2.495184
  153.  
  154. details: Georgia_Kotias.SG WSHG -0.001127 -2.915111
  155. details: Geoksyur_EN WSHG -0.000714 -2.640119
  156. details: Russia_Khvalynsk_EN WSHG 0.001022 3.497918
  157. details: Caucasus_Eneolithic WSHG -0.001193 -3.312387
  158. dscore: WSHG f4: 0.000211 Z: 0.907120
  159.  
  160. details: Georgia_Kotias.SG EEHG -0.001045 -2.508100
  161. details: Geoksyur_EN EEHG -0.001669 -6.097958
  162. details: Russia_Khvalynsk_EN EEHG 0.001780 6.113111
  163. details: Caucasus_Eneolithic EEHG -0.000436 -1.284255
  164. dscore: EEHG f4: 0.000570 Z: 2.482396
  165.  
  166. details: Georgia_Kotias.SG Anatolia_N 0.004456 10.786298
  167. details: Geoksyur_EN Anatolia_N 0.003421 11.582276
  168. details: Russia_Khvalynsk_EN Anatolia_N -0.002253 -6.844275
  169. details: Caucasus_Eneolithic Anatolia_N 0.006120 16.476566
  170. dscore: Anatolia_N f4: 0.000493 Z: 1.880999
  171.  
  172. details: Georgia_Kotias.SG Russia_Shamanka_EN.SG 0.003625 8.473557
  173. details: Geoksyur_EN Russia_Shamanka_EN.SG 0.002461 8.507070
  174. details: Russia_Khvalynsk_EN Russia_Shamanka_EN.SG -0.001090 -3.392771
  175. details: Caucasus_Eneolithic Russia_Shamanka_EN.SG 0.002614 7.277380
  176. dscore: Russia_Shamanka_EN.SG f4: 0.000507 Z: 1.987321
  177.  
  178. details: Georgia_Kotias.SG Georgia_Satsurblia.SG 0.008446 17.727330
  179. details: Geoksyur_EN Georgia_Satsurblia.SG 0.002492 7.622406
  180. details: Russia_Khvalynsk_EN Georgia_Satsurblia.SG -0.002475 -7.550285
  181. details: Caucasus_Eneolithic Georgia_Satsurblia.SG 0.004047 11.093780
  182. dscore: Georgia_Satsurblia.SG f4: 0.000366 Z: 1.386219
  183.  
  184. details: Georgia_Kotias.SG Ganj_Dareh_N 0.005263 11.669995
  185. details: Geoksyur_EN Ganj_Dareh_N 0.006318 20.150325
  186. details: Russia_Khvalynsk_EN Ganj_Dareh_N -0.002883 -9.167462
  187. details: Caucasus_Eneolithic Ganj_Dareh_N 0.004484 11.805293
  188. dscore: Ganj_Dareh_N f4: 0.000575 Z: 2.249226
  189.  
  190. details: Georgia_Kotias.SG Onge.DG 0.003813 8.096160
  191. details: Geoksyur_EN Onge.DG 0.003075 10.009965
  192. details: Russia_Khvalynsk_EN Onge.DG -0.001457 -4.254706
  193. details: Caucasus_Eneolithic Onge.DG 0.003419 8.945374
  194. dscore: Onge.DG f4: 0.000520 Z: 1.885454
  195.  
  196. details: Georgia_Kotias.SG PPN 0.003828 9.652650
  197. details: Geoksyur_EN PPN 0.003754 12.591912
  198. details: Russia_Khvalynsk_EN PPN -0.002057 -6.451796
  199. details: Caucasus_Eneolithic PPN 0.005863 15.200356
  200. dscore: PPN f4: 0.000577 Z: 2.248731
  201.  
  202. gendstat: Russia_MA1_HG WEHG 2.495
  203. gendstat: Russia_MA1_HG WSHG 0.907
  204. gendstat: Russia_MA1_HG EEHG 2.482
  205. gendstat: Russia_MA1_HG Anatolia_N 1.881
  206. gendstat: Russia_MA1_HG Russia_Shamanka_EN.SG 1.987
  207. gendstat: Russia_MA1_HG Georgia_Satsurblia.SG 1.386
  208. gendstat: Russia_MA1_HG Ganj_Dareh_N 2.249
  209. gendstat: Russia_MA1_HG Onge.DG 1.885
  210. gendstat: Russia_MA1_HG PPN 2.249
  211. gendstat: WEHG WSHG -1.865
  212. gendstat: WEHG EEHG -0.359
  213. gendstat: WEHG Anatolia_N -0.971
  214. gendstat: WEHG Russia_Shamanka_EN.SG -0.689
  215. gendstat: WEHG Georgia_Satsurblia.SG -1.093
  216. gendstat: WEHG Ganj_Dareh_N -0.313
  217. gendstat: WEHG Onge.DG -0.523
  218. gendstat: WEHG PPN -0.322
  219. gendstat: WSHG EEHG 1.734
  220. gendstat: WSHG Anatolia_N 1.169
  221. gendstat: WSHG Russia_Shamanka_EN.SG 1.285
  222. gendstat: WSHG Georgia_Satsurblia.SG 0.568
  223. gendstat: WSHG Ganj_Dareh_N 1.485
  224. gendstat: WSHG Onge.DG 1.183
  225. gendstat: WSHG PPN 1.466
  226. gendstat: EEHG Anatolia_N -0.374
  227. gendstat: EEHG Russia_Shamanka_EN.SG -0.296
  228. gendstat: EEHG Georgia_Satsurblia.SG -0.773
  229. gendstat: EEHG Ganj_Dareh_N 0.019
  230. gendstat: EEHG Onge.DG -0.200
  231. gendstat: EEHG PPN 0.032
  232. gendstat: Anatolia_N Russia_Shamanka_EN.SG 0.083
  233. gendstat: Anatolia_N Georgia_Satsurblia.SG -0.572
  234. gendstat: Anatolia_N Ganj_Dareh_N 0.516
  235. gendstat: Anatolia_N Onge.DG 0.139
  236. gendstat: Anatolia_N PPN 0.573
  237. gendstat: Russia_Shamanka_EN.SG Georgia_Satsurblia.SG -0.599
  238. gendstat: Russia_Shamanka_EN.SG Ganj_Dareh_N 0.386
  239. gendstat: Russia_Shamanka_EN.SG Onge.DG 0.074
  240. gendstat: Russia_Shamanka_EN.SG PPN 0.358
  241. gendstat: Georgia_Satsurblia.SG Ganj_Dareh_N 0.927
  242. gendstat: Georgia_Satsurblia.SG Onge.DG 0.584
  243. gendstat: Georgia_Satsurblia.SG PPN 0.843
  244. gendstat: Ganj_Dareh_N Onge.DG -0.274
  245. gendstat: Ganj_Dareh_N PPN 0.014
  246. gendstat: Onge.DG PPN 0.266
  247.  
  248. ##end of qpAdm: 242.767 seconds cpu 1293.783 Mbytes in use
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