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Legend_9813

English.DG qpAdm

Legend_9813
Apr 15th, 2024 (edited)
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  1. ### THE INPUT PARAMETERS
  2. ##PARAMETER NAME: VALUE
  3. indivname: v54.1.p1_1240K_public_merged.ind
  4. snpname: v54.1.p1_1240K_public_merged.snp
  5. genotypename: v54.1.p1_1240K_public_merged.geno
  6. popleft: left.txt
  7. popright: right.txt
  8. inbreed: NO
  9. allsnps: YES
  10. details: YES
  11. ## qpAdm version: 1201
  12. seed: -2092041431
  13. read 1073741824 bytes
  14. read 2147483648 bytes
  15. read 3221225472 bytes
  16. read 4294967296 bytes
  17. read 5368709120 bytes
  18. read 5421558161 bytes
  19. packed geno read OK
  20. end of inpack
  21.  
  22. left pops:
  23. English.DG
  24. Russia_Samara_EBA_Yamnaya
  25. Turkey_N
  26. WHG
  27.  
  28. right pops:
  29. Mbuti.DG
  30. EHG
  31. CHG
  32. WSHG
  33. Onge.DG
  34. Turkey_Boncuklu_N
  35. Levant_PPN
  36. Iran_GanjDareh_N
  37. Mongolia_North_N
  38. Serbia_IronGates_Mesolithic
  39.  
  40. 0 English.DG 2
  41. 1 Russia_Samara_EBA_Yamnaya 10
  42. 2 Turkey_N 33
  43. 3 WHG 4
  44. 4 Mbuti.DG 14
  45. 5 EHG 21
  46. 6 CHG 2
  47. 7 WSHG 2
  48. 8 Onge.DG 2
  49. 9 Turkey_Boncuklu_N 5
  50. 10 Levant_PPN 14
  51. 11 Iran_GanjDareh_N 10
  52. 12 Mongolia_North_N 5
  53. 13 Serbia_IronGates_Mesolithic 32
  54. jackknife block size: 0.050
  55. snps: 1150542 indivs: 156
  56. number of blocks for block jackknife: 714
  57. ## ncols: 1150542
  58. coverage: English.DG 1121351
  59. coverage: Russia_Samara_EBA_Yamnaya 1128467
  60. coverage: Turkey_N 1139051
  61. coverage: WHG 1150393
  62. coverage: Mbuti.DG 1149711
  63. coverage: EHG 1121793
  64. coverage: CHG 1147700
  65. coverage: WSHG 856571
  66. coverage: Onge.DG 1120748
  67. coverage: Turkey_Boncuklu_N 1069104
  68. coverage: Levant_PPN 630400
  69. coverage: Iran_GanjDareh_N 1057033
  70. coverage: Mongolia_North_N 1057835
  71. coverage: Serbia_IronGates_Mesolithic 1138678
  72. Effective number of blocks: 614.229
  73. numsnps used: 1150542
  74. codimension 1
  75. f4info:
  76. f4rank: 2 dof: 7 chisq: 18.139 tail: 0.0113578489 dofdiff: 9 chisqdiff: -18.139 taildiff: 1
  77. B:
  78. scale 1.000 1.000
  79. EHG 1.184 0.885
  80. CHG -0.250 0.903
  81. WSHG 0.514 1.592
  82. Onge.DG 0.277 0.337
  83. Turkey_Boncuklu_N -0.699 -1.330
  84. Levant_PPN -0.583 -0.878
  85. Iran_GanjDareh_N -0.341 0.715
  86. Mongolia_North_N 0.242 0.436
  87. Serbia_IronGates_Mesolithic 2.489 -1.230
  88. A:
  89. scale 324.034 575.865
  90. Russia_Samara_EBA_Yamnaya 0.240 1.176
  91. Turkey_N -0.723 -1.052
  92. WHG 1.556 -0.715
  93.  
  94.  
  95. full rank
  96. f4info:
  97. f4rank: 3 dof: 0 chisq: 0.000 tail: 1 dofdiff: 7 chisqdiff: 18.139 taildiff: 0.0113578489
  98. B:
  99. scale 427.820 362.717 195.564
  100. EHG 1.382 -1.381 1.001
  101. CHG 0.783 -0.353 -0.424
  102. WSHG 1.784 -1.319 0.202
  103. Onge.DG 0.331 -0.512 0.148
  104. Turkey_Boncuklu_N -1.218 1.544 -0.268
  105. Levant_PPN -0.783 1.173 -0.268
  106. Iran_GanjDareh_N 0.747 -0.026 -0.393
  107. Mongolia_North_N 0.725 -0.313 0.234
  108. Serbia_IronGates_Mesolithic -0.078 -1.054 2.721
  109. A:
  110. scale 1.732 1.732 1.732
  111. Russia_Samara_EBA_Yamnaya 1.732 0.000 0.000
  112. Turkey_N 0.000 1.732 0.000
  113. WHG 0.000 0.000 1.732
  114.  
  115.  
  116. best coefficients: 0.453 0.421 0.126
  117. Jackknife mean: 0.453090736 0.421254995 0.125654269
  118. std. errors: 0.017 0.014 0.010
  119.  
  120. error covariance (* 1,000,000)
  121. 275 -182 -93
  122. -182 185 -2
  123. -93 -2 95
  124.  
  125.  
  126. summ: English.DG 3 0.011358 0.453 0.421 0.126 275 -182 -93 185 -2 ...
  127. 95
  128.  
  129. fixed pat wt dof chisq tail prob
  130. 000 0 7 18.139 0.0113578 0.453 0.421 0.126
  131. 001 1 8 177.733 0 0.583 0.417 0.000
  132. 010 1 8 744.563 0 0.898 0.000 0.102
  133. 100 1 8 697.382 0 0.000 0.710 0.290
  134. 011 2 9 814.525 0 1.000 0.000 0.000
  135. 101 2 9 1567.307 0 0.000 1.000 0.000
  136. 110 2 9 3343.685 0 0.000 0.000 1.000
  137. best pat: 000 0.0113578 - -
  138. best pat: 001 3.07958e-34 chi(nested): 159.594 p-value for nested model: 1.3877e-36
  139. best pat: 011 1.58789e-169 chi(nested): 636.792 p-value for nested model: 1.66887e-140
  140.  
  141. coeffs: 0.453 0.421 0.126
  142.  
  143. ## dscore:: f_4(Base, Fit, Rbase, right2)
  144. ## genstat:: f_4(Base, Fit, right1, right2)
  145.  
  146. details: Russia_Samara_EBA_Yamnaya EHG 0.003229 12.012145
  147. details: Turkey_N EHG -0.003806 -15.568627
  148. details: WHG EHG 0.005120 16.210558
  149. dscore: EHG f4: 0.000504 Z: 2.166958
  150.  
  151. details: Russia_Samara_EBA_Yamnaya CHG 0.001830 6.376761
  152. details: Turkey_N CHG -0.000972 -3.619107
  153. details: WHG CHG -0.002170 -6.370151
  154. dscore: CHG f4: 0.000147 Z: 0.596799
  155.  
  156. details: Russia_Samara_EBA_Yamnaya WSHG 0.004169 14.277553
  157. details: Turkey_N WSHG -0.003637 -13.946338
  158. details: WHG WSHG 0.001033 3.012162
  159. dscore: WSHG f4: 0.000488 Z: 1.945248
  160.  
  161. details: Russia_Samara_EBA_Yamnaya Onge.DG 0.000773 2.716713
  162. details: Turkey_N Onge.DG -0.001412 -5.522181
  163. details: WHG Onge.DG 0.000756 2.200873
  164. dscore: Onge.DG f4: -0.000149 Z: -0.609500
  165.  
  166. details: Russia_Samara_EBA_Yamnaya Turkey_Boncuklu_N -0.002846 -10.993769
  167. details: Turkey_N Turkey_Boncuklu_N 0.004256 17.432702
  168. details: WHG Turkey_Boncuklu_N -0.001368 -4.686790
  169. dscore: Turkey_Boncuklu_N f4: 0.000331 Z: 1.500375
  170.  
  171. details: Russia_Samara_EBA_Yamnaya Levant_PPN -0.001831 -9.431453
  172. details: Turkey_N Levant_PPN 0.003233 16.754446
  173. details: WHG Levant_PPN -0.001372 -6.114309
  174. dscore: Levant_PPN f4: 0.000359 Z: 2.140796
  175.  
  176. details: Russia_Samara_EBA_Yamnaya Iran_GanjDareh_N 0.001746 7.217193
  177. details: Turkey_N Iran_GanjDareh_N -0.000070 -0.304657
  178. details: WHG Iran_GanjDareh_N -0.002009 -7.127695
  179. dscore: Iran_GanjDareh_N f4: 0.000509 Z: 2.388115
  180.  
  181. details: Russia_Samara_EBA_Yamnaya Mongolia_North_N 0.001695 6.424641
  182. details: Turkey_N Mongolia_North_N -0.000863 -3.829019
  183. details: WHG Mongolia_North_N 0.001197 3.975847
  184. dscore: Mongolia_North_N f4: 0.000555 Z: 2.498160
  185.  
  186. details: Russia_Samara_EBA_Yamnaya Serbia_IronGates_Mesolithic -0.000182 -0.682679
  187. details: Turkey_N Serbia_IronGates_Mesolithic -0.002905 -12.039932
  188. details: WHG Serbia_IronGates_Mesolithic 0.013912 42.567128
  189. dscore: Serbia_IronGates_Mesolithic f4: 0.000442 Z: 1.938755
  190.  
  191. gendstat: Mbuti.DG EHG 2.167
  192. gendstat: Mbuti.DG CHG 0.597
  193. gendstat: Mbuti.DG WSHG 1.945
  194. gendstat: Mbuti.DG Onge.DG -0.609
  195. gendstat: Mbuti.DG Turkey_Boncuklu_N 1.500
  196. gendstat: Mbuti.DG Levant_PPN 2.141
  197. gendstat: Mbuti.DG Iran_GanjDareh_N 2.388
  198. gendstat: Mbuti.DG Mongolia_North_N 2.498
  199. gendstat: Mbuti.DG Serbia_IronGates_Mesolithic 1.939
  200. gendstat: EHG CHG -1.466
  201. gendstat: EHG WSHG -0.088
  202. gendstat: EHG Onge.DG -2.665
  203. gendstat: EHG Turkey_Boncuklu_N -0.785
  204. gendstat: EHG Levant_PPN -0.659
  205. gendstat: EHG Iran_GanjDareh_N 0.026
  206. gendstat: EHG Mongolia_North_N 0.246
  207. gendstat: EHG Serbia_IronGates_Mesolithic -0.393
  208. gendstat: CHG WSHG 1.252
  209. gendstat: CHG Onge.DG -1.039
  210. gendstat: CHG Turkey_Boncuklu_N 0.721
  211. gendstat: CHG Levant_PPN 0.908
  212. gendstat: CHG Iran_GanjDareh_N 1.631
  213. gendstat: CHG Mongolia_North_N 1.642
  214. gendstat: CHG Serbia_IronGates_Mesolithic 1.162
  215. gendstat: WSHG Onge.DG -2.496
  216. gendstat: WSHG Turkey_Boncuklu_N -0.620
  217. gendstat: WSHG Levant_PPN -0.532
  218. gendstat: WSHG Iran_GanjDareh_N 0.096
  219. gendstat: WSHG Mongolia_North_N 0.314
  220. gendstat: WSHG Serbia_IronGates_Mesolithic -0.202
  221. gendstat: Onge.DG Turkey_Boncuklu_N 1.855
  222. gendstat: Onge.DG Levant_PPN 2.083
  223. gendstat: Onge.DG Iran_GanjDareh_N 2.656
  224. gendstat: Onge.DG Mongolia_North_N 3.100
  225. gendstat: Onge.DG Serbia_IronGates_Mesolithic 2.349
  226. gendstat: Turkey_Boncuklu_N Levant_PPN 0.154
  227. gendstat: Turkey_Boncuklu_N Iran_GanjDareh_N 0.832
  228. gendstat: Turkey_Boncuklu_N Mongolia_North_N 0.936
  229. gendstat: Turkey_Boncuklu_N Serbia_IronGates_Mesolithic 0.550
  230. gendstat: Levant_PPN Iran_GanjDareh_N 0.755
  231. gendstat: Levant_PPN Mongolia_North_N 0.908
  232. gendstat: Levant_PPN Serbia_IronGates_Mesolithic 0.412
  233. gendstat: Iran_GanjDareh_N Mongolia_North_N 0.221
  234. gendstat: Iran_GanjDareh_N Serbia_IronGates_Mesolithic -0.313
  235. gendstat: Mongolia_North_N Serbia_IronGates_Mesolithic -0.509
  236.  
  237. ##end of qpAdm: 106.624 seconds cpu 1246.233 Mbytes in use
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