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misnomer001

china_ia

misnomer001
Mar 30th, 2020
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  1. allsnps: YES
  2. ## qpAdm version: 1000
  3. seed: 1845800041
  4. read 1073741824 bytes
  5. read 2146675633 bytes
  6. packed geno read OK
  7. end of inpack
  8.  
  9. left pops:
  10. China_IA.SG
  11. Kazakhstan_CentralSaka.SG
  12. Nepal_Chokhopani_2700BP.SG
  13. Kyrgyzstan_BA_Aygirdjal
  14.  
  15. right pops:
  16. Cameroon_SMA.DG
  17. EEHG
  18. WSHG
  19. PPN
  20. WEHG
  21. Anatolia_N
  22. Iran_GanjDareh_N
  23. CHG
  24. ONG.SG
  25. Boisman_MN
  26.  
  27. 0 China_IA.SG 11
  28. 1 Kazakhstan_CentralSaka.SG 6
  29. 2 Nepal_Chokhopani_2700BP.SG 1
  30. 3 Kyrgyzstan_BA_Aygirdjal 2
  31. 4 Cameroon_SMA.DG 1
  32. 5 EEHG 5
  33. 6 WSHG 3
  34. 7 PPN 11
  35. 8 WEHG 33
  36. 9 Anatolia_N 22
  37. 10 Iran_GanjDareh_N 8
  38. 11 CHG 2
  39. 12 ONG.SG 6
  40. 13 Boisman_MN 12
  41. jackknife block size: 0.050
  42. snps: 1150511 indivs: 123
  43. number of blocks for block jackknife: 713
  44. ## ncols: 1150511
  45. coverage: China_IA.SG 930938
  46. coverage: Kazakhstan_CentralSaka.SG 1117108
  47. coverage: Nepal_Chokhopani_2700BP.SG 1147419
  48. coverage: Kyrgyzstan_BA_Aygirdjal 818114
  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: CHG 1149558
  57. coverage: ONG.SG 1143397
  58. coverage: Boisman_MN 1031750
  59. dof (jackknife): 616.720
  60. numsnps used: 1150511
  61. codimension 1
  62. f4info:
  63. f4rank: 2 dof: 7 chisq: 7.606 tail: 0.368611406 dofdiff: 9 chisqdiff: -7.606 taildiff: 1
  64. B:
  65. scale 1.000 1.000
  66. EEHG 1.115 0.791
  67. WSHG 0.817 -0.301
  68. PPN 0.663 0.445
  69. WEHG 1.033 1.540
  70. Anatolia_N 0.910 0.602
  71. Iran_GanjDareh_N 0.888 -1.489
  72. CHG 0.998 -0.464
  73. ONG.SG -0.812 0.211
  74. Boisman_MN -1.520 1.695
  75. A:
  76. scale 321.943 1611.976
  77. Kazakhstan_CentralSaka.SG 0.204 0.547
  78. Nepal_Chokhopani_2700BP.SG -1.537 -0.734
  79. Kyrgyzstan_BA_Aygirdjal 0.773 -1.470
  80.  
  81.  
  82. full rank
  83. f4info:
  84. f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 7 chisqdiff: 7.606 taildiff: 0.368611406
  85. B:
  86. scale 1492.127 209.327 372.875
  87. EEHG 1.050 -1.261 0.656
  88. WSHG 0.561 -0.815 0.803
  89. PPN 1.100 -0.694 0.467
  90. WEHG 1.911 -1.181 0.403
  91. Anatolia_N 1.254 -0.979 0.598
  92. Iran_GanjDareh_N 0.306 -0.740 1.304
  93. CHG 0.401 -1.011 0.975
  94. ONG.SG -0.724 0.759 -0.829
  95. Boisman_MN -0.608 1.329 -1.962
  96. A:
  97. scale 1.732 1.732 1.732
  98. Kazakhstan_CentralSaka.SG 1.732 0.000 0.000
  99. Nepal_Chokhopani_2700BP.SG 0.000 1.732 0.000
  100. Kyrgyzstan_BA_Aygirdjal 0.000 0.000 1.732
  101.  
  102.  
  103. best coefficients: 0.667 0.170 0.163
  104. Jackknife mean: 0.666142240 0.170492826 0.163364934
  105. std. errors: 0.049 0.019 0.034
  106.  
  107. error covariance (* 1,000,000)
  108. 2398 -810 -1588
  109. -810 379 430
  110. -1588 430 1158
  111.  
  112.  
  113. summ: China_IA.SG 3 0.368611 0.666 0.170 0.163 2398 -810 -1588 379 430 ...
  114. 1158
  115.  
  116. fixed pat wt dof chisq tail prob
  117. 000 0 7 7.606 0.368611 0.667 0.170 0.163
  118. 001 1 8 27.615 0.000553362 0.893 0.107 0.000
  119. 010 1 8 60.393 3.90306e-10 1.056 0.000 -0.056 infeasible
  120. 100 1 8 151.069 1.17315e-28 0.000 0.394 0.606
  121. 011 2 9 63.576 2.72819e-10 1.000 0.000 0.000
  122. 101 2 9 1602.589 0 0.000 1.000 0.000
  123. 110 2 9 1057.086 0 0.000 0.000 1.000
  124. best pat: 000 0.368611 - -
  125. best pat: 100 1.17315e-28 chi(nested): 143.463 p-value for nested model: 4.65507e-33
  126. best pat: 011 2.72819e-10 not nested
  127.  
  128. coeffs: 0.667 0.170 0.163
  129.  
  130. ## dscore:: f_4(Base, Fit, Rbase, right2)
  131. ## genstat:: f_4(Base, Fit, right1, right2)
  132.  
  133. details: Kazakhstan_CentralSaka.SG EEHG 0.000703 2.616109
  134. details: Nepal_Chokhopani_2700BP.SG EEHG -0.006026 -15.955935
  135. details: Kyrgyzstan_BA_Aygirdjal EEHG 0.001758 5.568913
  136. dscore: EEHG f4: -0.000271 Z: -1.163803
  137.  
  138. details: Kazakhstan_CentralSaka.SG WSHG 0.000376 1.417408
  139. details: Nepal_Chokhopani_2700BP.SG WSHG -0.003896 -10.593957
  140. details: Kyrgyzstan_BA_Aygirdjal WSHG 0.002152 6.244572
  141. dscore: WSHG f4: -0.000062 Z: -0.263151
  142.  
  143. details: Kazakhstan_CentralSaka.SG PPN 0.000737 3.177018
  144. details: Nepal_Chokhopani_2700BP.SG PPN -0.003314 -10.092847
  145. details: Kyrgyzstan_BA_Aygirdjal PPN 0.001251 4.529212
  146. dscore: PPN f4: 0.000131 Z: 0.640310
  147.  
  148. details: Kazakhstan_CentralSaka.SG WEHG 0.001281 4.981030
  149. details: Nepal_Chokhopani_2700BP.SG WEHG -0.005641 -15.812723
  150. details: Kyrgyzstan_BA_Aygirdjal WEHG 0.001080 3.516578
  151. dscore: WEHG f4: 0.000069 Z: 0.310556
  152.  
  153. details: Kazakhstan_CentralSaka.SG Anatolia_N 0.000840 3.649647
  154. details: Nepal_Chokhopani_2700BP.SG Anatolia_N -0.004675 -13.803654
  155. details: Kyrgyzstan_BA_Aygirdjal Anatolia_N 0.001603 5.901134
  156. dscore: Anatolia_N f4: 0.000025 Z: 0.128332
  157.  
  158. details: Kazakhstan_CentralSaka.SG Iran_GanjDareh_N 0.000205 0.869986
  159. details: Nepal_Chokhopani_2700BP.SG Iran_GanjDareh_N -0.003537 -10.289749
  160. details: Kyrgyzstan_BA_Aygirdjal Iran_GanjDareh_N 0.003497 11.976835
  161. dscore: Iran_GanjDareh_N f4: 0.000104 Z: 0.493114
  162.  
  163. details: Kazakhstan_CentralSaka.SG CHG 0.000269 1.012516
  164. details: Nepal_Chokhopani_2700BP.SG CHG -0.004829 -13.083074
  165. details: Kyrgyzstan_BA_Aygirdjal CHG 0.002616 8.934897
  166. dscore: CHG f4: -0.000217 Z: -0.950025
  167.  
  168. details: Kazakhstan_CentralSaka.SG ONG.SG -0.000486 -1.906810
  169. details: Nepal_Chokhopani_2700BP.SG ONG.SG 0.003624 9.605974
  170. details: Kyrgyzstan_BA_Aygirdjal ONG.SG -0.002222 -7.956122
  171. dscore: ONG.SG f4: -0.000069 Z: -0.311004
  172.  
  173. details: Kazakhstan_CentralSaka.SG Boisman_MN -0.000408 -1.492464
  174. details: Nepal_Chokhopani_2700BP.SG Boisman_MN 0.006348 16.946214
  175. details: Kyrgyzstan_BA_Aygirdjal Boisman_MN -0.005263 -16.837724
  176. dscore: Boisman_MN f4: -0.000048 Z: -0.202842
  177.  
  178. gendstat: Cameroon_SMA.DG EEHG -1.164
  179. gendstat: Cameroon_SMA.DG WSHG -0.263
  180. gendstat: Cameroon_SMA.DG PPN 0.640
  181. gendstat: Cameroon_SMA.DG WEHG 0.311
  182. gendstat: Cameroon_SMA.DG Anatolia_N 0.128
  183. gendstat: Cameroon_SMA.DG Iran_GanjDareh_N 0.493
  184. gendstat: Cameroon_SMA.DG CHG -0.950
  185. gendstat: Cameroon_SMA.DG ONG.SG -0.311
  186. gendstat: Cameroon_SMA.DG Boisman_MN -0.203
  187. gendstat: EEHG WSHG 1.008
  188. gendstat: EEHG PPN 1.782
  189. gendstat: EEHG WEHG 1.902
  190. gendstat: EEHG Anatolia_N 1.555
  191. gendstat: EEHG Iran_GanjDareh_N 1.738
  192. gendstat: EEHG CHG 0.236
  193. gendstat: EEHG ONG.SG 0.889
  194. gendstat: EEHG Boisman_MN 0.857
  195. gendstat: WSHG PPN 0.822
  196. gendstat: WSHG WEHG 0.604
  197. gendstat: WSHG Anatolia_N 0.411
  198. gendstat: WSHG Iran_GanjDareh_N 0.713
  199. gendstat: WSHG CHG -0.641
  200. gendstat: WSHG ONG.SG -0.027
  201. gendstat: WSHG Boisman_MN 0.055
  202. gendstat: PPN WEHG -0.314
  203. gendstat: PPN Anatolia_N -0.641
  204. gendstat: PPN Iran_GanjDareh_N -0.135
  205. gendstat: PPN CHG -1.578
  206. gendstat: PPN ONG.SG -0.882
  207. gendstat: PPN Boisman_MN -0.706
  208. gendstat: WEHG Anatolia_N -0.311
  209. gendstat: WEHG Iran_GanjDareh_N 0.178
  210. gendstat: WEHG CHG -1.453
  211. gendstat: WEHG ONG.SG -0.653
  212. gendstat: WEHG Boisman_MN -0.477
  213. gendstat: Anatolia_N Iran_GanjDareh_N 0.471
  214. gendstat: Anatolia_N CHG -1.379
  215. gendstat: Anatolia_N ONG.SG -0.471
  216. gendstat: Anatolia_N Boisman_MN -0.322
  217. gendstat: Iran_GanjDareh_N CHG -1.586
  218. gendstat: Iran_GanjDareh_N ONG.SG -0.813
  219. gendstat: Iran_GanjDareh_N Boisman_MN -0.652
  220. gendstat: CHG ONG.SG 0.646
  221. gendstat: CHG Boisman_MN 0.671
  222. gendstat: ONG.SG Boisman_MN 0.102
  223.  
  224. ##end of qpAdm: 493.325 seconds cpu 1257.697 Mbytes in use
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