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May 5th, 2016
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  1. Model is not identifiable...
  2. summary from lme4 is returned
  3. some computational error has occurred in lmerTest
  4.  
  5.  
  6. Model is not identifiable...
  7. Error in base::chol2inv(x, ...) : 'a' must be a numeric matrix
  8.  
  9. > Rstats <- read.csv("~/Dropbox/R stats.csv")
  10. > Rstats
  11. Treatment Sig Rep Values
  12. 1 luc low 1 3081182
  13. 2 luc low 1 3067997
  14. 3 luc low 2 4517539
  15. 4 luc low 2 4862481
  16. 5 luc low 3 4836874
  17. 6 luc low 3 4687831
  18. 7 utr low 1 2110208
  19. 8 utr low 1 2147653
  20. 9 utr low 2 2692765
  21. 10 utr low 2 3222273
  22. 11 utr low 3 1599556
  23. 12 utr low 3 1601848
  24. 13 luc high 1 2046070
  25. 14 luc high 1 2046958
  26. 15 luc high 2 3053723
  27. 16 luc high 2 3054667
  28. 17 luc high 3 1969402
  29. 18 luc high 3 1950767
  30. 19 utr high 1 1178373
  31. 20 utr high 1 1100908
  32. 21 utr high 2 1297684
  33. 22 utr high 2 1379638
  34. 23 utr high 3 1136914
  35. 24 utr high 3 1131103
  36. 25 m1 low 1 2278695
  37. 26 m1 low 1 2406247
  38. 27 m1 low 1 2649573
  39. 28 m1 low 2 2578858
  40. 29 m1 low 2 2568366
  41. 30 m1 low 3 4955344
  42. 31 m1 low 3 4986120
  43. 32 m1 high 1 1280173
  44. 33 m1 high 1 1571484
  45. 34 m1 high 1 1822083
  46. 35 m1 high 2 1628416
  47. 36 m1 high 2 1573733
  48. 37 m1 high 3 1919091
  49. 38 m1 high 3 1724770
  50. 39 m2 low 1 1330070
  51. 40 m2 low 1 1174064
  52. 41 m2 low 1 1314733
  53. 42 m2 low 2 2369844
  54. 43 m2 low 2 2348595
  55. 44 m2 low 3 4477456
  56. 45 m2 low 3 4386348
  57. 46 m2 high 1 851196
  58. 47 m2 high 1 789824
  59. 48 m2 high 1 797485
  60. 49 m2 high 2 872469
  61. 50 m2 high 2 885174
  62. 51 m2 high 3 2137142
  63. 52 m2 high 3 2026491
  64. 53 m3 low 1 3633856
  65. 54 m3 low 1 4008909
  66. 55 m3 low 2 4066817
  67. 56 m3 low 2 4626628
  68. 57 m3 low 3 4063864
  69. 58 m3 low 3 4200093
  70. 59 m3 low 3 4131145
  71. 60 m3 high 1 1392872
  72. 61 m3 high 1 1775025
  73. 62 m3 high 2 2634198
  74. 63 m3 high 2 2646698
  75. 64 m3 high 3 2548206
  76. 65 m3 high 3 2666324
  77. 66 m4 low 1 3756921
  78. 67 m4 low 1 4285239
  79. 68 m4 low 1 3802821
  80. 69 m4 low 2 4297518
  81. 70 m4 low 2 4685541
  82. 71 m4 low 3 5510624
  83. 72 m4 low 3 5755805
  84. 73 m4 high 1 1202740
  85. 74 m4 high 1 1519717
  86. 75 m4 high 1 1069819
  87. 76 m4 high 2 2674748
  88. 77 m4 high 2 2658240
  89. 78 m4 high 3 3029938
  90. 79 m4 high 3 2893930
  91. 80 m5 low 1 1667185
  92. 81 m5 low 1 1794860
  93. 82 m5 low 2 2282347
  94. 83 m5 low 2 2481697
  95. 84 m5 low 3 4319992
  96. 85 m5 low 3 4314514
  97. 86 m5 high 1 1168027
  98. 87 m5 high 1 1104565
  99. 88 m5 high 2 1121619
  100. 89 m5 high 2 1721151
  101. 90 m5 high 3 1300998
  102. 91 m5 high 3 1320560
  103. 92 m6 low 1 3635387
  104. 93 m6 low 1 4013003
  105. 94 m6 low 2 5218195
  106. 95 m6 low 2 5271826
  107. 96 m6 low 3 4282878
  108. 97 m6 low 3 4381196
  109. 98 m6 high 1 2079993
  110. 99 m6 high 1 2264893
  111. 100 m6 high 1 1831285
  112. 101 m6 high 2 2989859
  113. 102 m6 high 2 3264232
  114. 103 m6 high 3 1959999
  115. 104 m6 high 3 1976519
  116.  
  117. > Anova1=lmer(Values~Treatment*Sig+(1|Rep), data=Rstats)
  118. > summary(Anova1)
  119. Model is not identifiable...
  120. summary from lme4 is returned
  121. some computational error has occurred in lmerTest
  122. Linear mixed model fit by REML ['lmerMod']
  123. Formula: Values ~ Treatment * Sig + (1 | Rep)
  124. Data: Rstats
  125.  
  126. REML criterion at convergence: 2630.4
  127.  
  128. Scaled residuals:
  129. Min 1Q Median 3Q Max
  130. -1.7070 -0.7135 -0.0029 0.6699 2.4632
  131.  
  132. Random effects:
  133. Groups Name Variance Std.Dev.
  134. Rep (Intercept) 2.729e+11 522409
  135. Residual 3.707e+11 608835
  136. Number of obs: 104, groups: Rep, 3
  137.  
  138. Fixed effects:
  139. Estimate Std. Error t value
  140. (Intercept) 2353598 390833 6.022
  141. Treatmentm1 -625863 338923 -1.847
  142. Treatmentm2 -1077287 338923 -3.179
  143. Treatmentm3 -76377 351511 -0.217
  144. Treatmentm4 -121665 338923 -0.359
  145. Treatmentm5 -1064111 351511 -3.027
  146. Treatmentm6 66570 338923 0.196
  147. Treatmentutr -1149494 351511 -3.270
  148. Siglow 1822053 351511 5.183
  149. Treatmentm1:Siglow -264417 479029 -0.552
  150. Treatmentm2:Siglow -530434 479029 -1.107
  151. Treatmentm3:Siglow -53345 488302 -0.109
  152. Treatmentm4:Siglow 612995 479029 1.280
  153. Treatmentm5:Siglow -301440 497112 -0.606
  154. Treatmentm6:Siglow 224860 488292 0.461
  155. Treatmentutr:Siglow -797106 497112 -1.603
  156.  
  157. Correlation matrix not shown by default, as p = 16 > 12.
  158. Use print(x, correlation=TRUE) or
  159. vcov(x) if you need it
  160.  
  161. > lsmeans(Anova1, test.effs="Treatment")
  162. Model is not identifiable...
  163. Error in base::chol2inv(x, ...) : 'a' must be a numeric matrix
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