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misnomer001

alalakh outlier bmac + sintashta_o1

misnomer001
May 30th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1619861803
  4. read 1073741824 bytes
  5. read 2147483648 bytes
  6. read 2179966984 bytes
  7. packed geno read OK
  8. end of inpack
  9.  
  10. left pops:
  11. Alalakh_MLBA_outlier
  12. Uzbekistan_BA_Dzharkutan1
  13. Russia_MLBA_Sintashta_o1
  14.  
  15. right pops:
  16. Cameroon_SMA.DG
  17. EEHG
  18. WSHG
  19. PPN
  20. WEHG
  21. Anatolia_N
  22. Iran_GanjDareh_N
  23. Russia_UstBelaya_Angara
  24. ONG.SG
  25. Botai
  26. CHG
  27.  
  28. 0 Alalakh_MLBA_outlier 1
  29. 1 Uzbekistan_BA_Dzharkutan1 7
  30. 2 Russia_MLBA_Sintashta_o1 3
  31. 3 Cameroon_SMA.DG 1
  32. 4 EEHG 5
  33. 5 WSHG 3
  34. 6 PPN 11
  35. 7 WEHG 33
  36. 8 Anatolia_N 22
  37. 9 Iran_GanjDareh_N 8
  38. 10 Russia_UstBelaya_Angara 8
  39. 11 ONG.SG 6
  40. 12 Botai 2
  41. 13 CHG 2
  42. jackknife block size: 0.050
  43. snps: 1150509 indivs: 112
  44. number of blocks for block jackknife: 713
  45. ## ncols: 1150509
  46. coverage: Alalakh_MLBA_outlier 733730
  47. coverage: Uzbekistan_BA_Dzharkutan1 1054006
  48. coverage: Russia_MLBA_Sintashta_o1 429408
  49. coverage: Cameroon_SMA.DG 1140138
  50. coverage: EEHG 1052093
  51. coverage: WSHG 858019
  52. coverage: PPN 847771
  53. coverage: WEHG 1140599
  54. coverage: Anatolia_N 1139031
  55. coverage: Iran_GanjDareh_N 1057358
  56. coverage: Russia_UstBelaya_Angara 1072574
  57. coverage: ONG.SG 1143397
  58. coverage: Botai 926654
  59. coverage: CHG 1149558
  60. dof (jackknife): 619.936
  61. numsnps used: 1150509
  62. codimension 1
  63. f4info:
  64. f4rank: 1 dof: 9 chisq: 9.731 tail: 0.372712204 dofdiff: 11 chisqdiff: -9.731 taildiff: 1
  65. B:
  66. scale 1.000
  67. EEHG 1.361
  68. WSHG 1.837
  69. PPN -0.367
  70. WEHG 0.626
  71. Anatolia_N -0.331
  72. Iran_GanjDareh_N -0.470
  73. Russia_UstBelaya_Angara 0.921
  74. ONG.SG 0.298
  75. Botai 1.717
  76. CHG -0.178
  77. A:
  78. scale 453.246
  79. Uzbekistan_BA_Dzharkutan1 -0.168
  80. Russia_MLBA_Sintashta_o1 1.404
  81.  
  82.  
  83. full rank
  84. f4info:
  85. f4rank: 2 dof: 0 chisq: 0.000 tail: 1 dofdiff: 9 chisqdiff: 9.731 taildiff: 0.372712204
  86. B:
  87. scale 2111.842 322.924
  88. EEHG -0.611 1.407
  89. WSHG -1.512 1.845
  90. PPN -0.138 -0.389
  91. WEHG -1.123 0.581
  92. Anatolia_N -0.132 -0.355
  93. Iran_GanjDareh_N 0.550 -0.441
  94. Russia_UstBelaya_Angara -1.718 0.839
  95. ONG.SG -0.796 0.256
  96. Botai -1.461 1.733
  97. CHG -0.140 -0.180
  98. A:
  99. scale 1.414 1.414
  100. Uzbekistan_BA_Dzharkutan1 1.414 0.000
  101. Russia_MLBA_Sintashta_o1 0.000 1.414
  102.  
  103.  
  104. best coefficients: 0.893 0.107
  105. Jackknife mean: 0.893037474 0.106962526
  106. std. errors: 0.031 0.031
  107.  
  108. error covariance (* 1,000,000)
  109. 936 -936
  110. -936 936
  111.  
  112.  
  113. summ: Alalakh_MLBA_outlier 2 0.372712 0.893 0.107 936 -936 936
  114.  
  115. fixed pat wt dof chisq tail prob
  116. 00 0 9 9.731 0.372712 0.893 0.107
  117. 01 1 10 20.816 0.0224147 1.000 0.000
  118. 10 1 10 863.054 0 0.000 1.000
  119. best pat: 00 0.372712 - -
  120. best pat: 01 0.0224147 chi(nested): 11.085 p-value for nested model: 0.000870269
  121.  
  122. coeffs: 0.893 0.107
  123.  
  124. ## dscore:: f_4(Base, Fit, Rbase, right2)
  125. ## genstat:: f_4(Base, Fit, right1, right2)
  126.  
  127. details: Uzbekistan_BA_Dzharkutan1 EEHG -0.000289 -0.875296
  128. details: Russia_MLBA_Sintashta_o1 EEHG 0.004358 13.931195
  129. dscore: EEHG f4: 0.000206 Z: 0.654581
  130.  
  131. details: Uzbekistan_BA_Dzharkutan1 WSHG -0.000716 -2.044571
  132. details: Russia_MLBA_Sintashta_o1 WSHG 0.005713 16.563556
  133. dscore: WSHG f4: -0.000030 Z: -0.090141
  134.  
  135. details: Uzbekistan_BA_Dzharkutan1 PPN -0.000065 -0.206428
  136. details: Russia_MLBA_Sintashta_o1 PPN -0.001206 -4.085221
  137. dscore: PPN f4: -0.000187 Z: -0.620409
  138.  
  139. details: Uzbekistan_BA_Dzharkutan1 WEHG -0.000532 -1.713114
  140. details: Russia_MLBA_Sintashta_o1 WEHG 0.001799 5.636427
  141. dscore: WEHG f4: -0.000283 Z: -0.947754
  142.  
  143. details: Uzbekistan_BA_Dzharkutan1 Anatolia_N -0.000063 -0.222056
  144. details: Russia_MLBA_Sintashta_o1 Anatolia_N -0.001100 -3.739445
  145. dscore: Anatolia_N f4: -0.000173 Z: -0.638702
  146.  
  147. details: Uzbekistan_BA_Dzharkutan1 Iran_GanjDareh_N 0.000261 0.893247
  148. details: Russia_MLBA_Sintashta_o1 Iran_GanjDareh_N -0.001366 -4.917391
  149. dscore: Iran_GanjDareh_N f4: 0.000087 Z: 0.312630
  150.  
  151. details: Uzbekistan_BA_Dzharkutan1 Russia_UstBelaya_Angara -0.000814 -2.705523
  152. details: Russia_MLBA_Sintashta_o1 Russia_UstBelaya_Angara 0.002597 8.887167
  153. dscore: Russia_UstBelaya_Angara f4: -0.000450 Z: -1.564328
  154.  
  155. details: Uzbekistan_BA_Dzharkutan1 ONG.SG -0.000377 -1.211434
  156. details: Russia_MLBA_Sintashta_o1 ONG.SG 0.000794 2.625585
  157. dscore: ONG.SG f4: -0.000252 Z: -0.845226
  158.  
  159. details: Uzbekistan_BA_Dzharkutan1 Botai -0.000692 -1.926981
  160. details: Russia_MLBA_Sintashta_o1 Botai 0.005368 15.471300
  161. dscore: Botai f4: -0.000046 Z: -0.133244
  162.  
  163. details: Uzbekistan_BA_Dzharkutan1 CHG -0.000066 -0.200542
  164. details: Russia_MLBA_Sintashta_o1 CHG -0.000557 -2.030224
  165. dscore: CHG f4: -0.000119 Z: -0.379491
  166.  
  167. gendstat: Cameroon_SMA.DG EEHG 0.655
  168. gendstat: Cameroon_SMA.DG WSHG -0.090
  169. gendstat: Cameroon_SMA.DG PPN -0.620
  170. gendstat: Cameroon_SMA.DG WEHG -0.948
  171. gendstat: Cameroon_SMA.DG Anatolia_N -0.639
  172. gendstat: Cameroon_SMA.DG Iran_GanjDareh_N 0.313
  173. gendstat: Cameroon_SMA.DG Russia_UstBelaya_Angara -1.564
  174. gendstat: Cameroon_SMA.DG ONG.SG -0.845
  175. gendstat: Cameroon_SMA.DG Botai -0.133
  176. gendstat: Cameroon_SMA.DG CHG -0.379
  177. gendstat: EEHG WSHG -0.868
  178. gendstat: EEHG PPN -1.247
  179. gendstat: EEHG WEHG -2.090
  180. gendstat: EEHG Anatolia_N -1.477
  181. gendstat: EEHG Iran_GanjDareh_N -0.400
  182. gendstat: EEHG Russia_UstBelaya_Angara -2.358
  183. gendstat: EEHG ONG.SG -1.482
  184. gendstat: EEHG Botai -0.952
  185. gendstat: EEHG CHG -1.036
  186. gendstat: WSHG PPN -0.458
  187. gendstat: WSHG WEHG -0.904
  188. gendstat: WSHG Anatolia_N -0.501
  189. gendstat: WSHG Iran_GanjDareh_N 0.367
  190. gendstat: WSHG Russia_UstBelaya_Angara -1.448
  191. gendstat: WSHG ONG.SG -0.686
  192. gendstat: WSHG Botai -0.056
  193. gendstat: WSHG CHG -0.261
  194. gendstat: PPN WEHG -0.369
  195. gendstat: PPN Anatolia_N 0.065
  196. gendstat: PPN Iran_GanjDareh_N 0.955
  197. gendstat: PPN Russia_UstBelaya_Angara -0.870
  198. gendstat: PPN ONG.SG -0.207
  199. gendstat: PPN Botai 0.393
  200. gendstat: PPN CHG 0.227
  201. gendstat: WEHG Anatolia_N 0.553
  202. gendstat: WEHG Iran_GanjDareh_N 1.410
  203. gendstat: WEHG Russia_UstBelaya_Angara -0.642
  204. gendstat: WEHG ONG.SG 0.109
  205. gendstat: WEHG Botai 0.826
  206. gendstat: WEHG CHG 0.591
  207. gendstat: Anatolia_N Iran_GanjDareh_N 1.125
  208. gendstat: Anatolia_N Russia_UstBelaya_Angara -1.083
  209. gendstat: Anatolia_N ONG.SG -0.288
  210. gendstat: Anatolia_N Botai 0.425
  211. gendstat: Anatolia_N CHG 0.213
  212. gendstat: Iran_GanjDareh_N Russia_UstBelaya_Angara -1.975
  213. gendstat: Iran_GanjDareh_N ONG.SG -1.201
  214. gendstat: Iran_GanjDareh_N Botai -0.417
  215. gendstat: Iran_GanjDareh_N CHG -0.750
  216. gendstat: Russia_UstBelaya_Angara ONG.SG 0.800
  217. gendstat: Russia_UstBelaya_Angara Botai 1.489
  218. gendstat: Russia_UstBelaya_Angara CHG 1.073
  219. gendstat: ONG.SG Botai 0.644
  220. gendstat: ONG.SG CHG 0.416
  221. gendstat: Botai CHG -0.214
  222.  
  223. ##end of qpAdm: 374.466 seconds cpu 1257.591 Mbytes in use
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