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May 23rd, 2018
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  1. > mod1 <- coxph(
  2. > Surv(db3$time, db3$panier) ~ sex + vaccination + age_class,
  3. > data = db3
  4. > )
  5. > summary(mod1)
  6.  
  7.  
  8.  
  9. Call:
  10. coxph(formula = Surv(db3$time, db3$panier) ~ sex + vaccination +
  11. age_class, data = db3)
  12.  
  13. n= 2437352, number of events= 211732
  14.  
  15. coef exp(coef) se(coef) z Pr(>|z|)
  16. sex1 -0.132444 0.875952 0.004624 -28.64 <2e-16 ***
  17. vaccination -0.405701 0.666509 0.006545 -61.99 <2e-16 ***
  18. age_class(10,20] -0.407904 0.665043 0.014687 -27.77 <2e-16 ***
  19. age_class(20,30] -0.903083 0.405318 0.012527 -72.09 <2e-16 ***
  20. age_class(30,40] -0.948397 0.387362 0.011552 -82.10 <2e-16 ***
  21. age_class(40,50] -1.045602 0.351480 0.011140 -93.86 <2e-16 ***
  22. age_class(50,60] -1.134455 0.321597 0.010823 -104.82 <2e-16 ***
  23. age_class(60,70] -1.303770 0.271506 0.010889 -119.73 <2e-16 ***
  24. age_class(70,80] -1.415494 0.242806 0.011778 -120.18 <2e-16 ***
  25. age_class(80,90] -1.615479 0.198796 0.013093 -123.39 <2e-16 ***
  26. age_class(90,100] -2.024649 0.132040 0.023573 -85.89 <2e-16 ***
  27. ---
  28. Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
  29.  
  30. exp(coef) exp(-coef) lower .95 upper .95
  31. sex1 0.8760 1.142 0.8680 0.8839
  32. vaccination 0.6665 1.500 0.6580 0.6751
  33. age_class(10,20] 0.6650 1.504 0.6462 0.6845
  34. age_class(20,30] 0.4053 2.467 0.3955 0.4154
  35. age_class(30,40] 0.3874 2.582 0.3787 0.3962
  36. age_class(40,50] 0.3515 2.845 0.3439 0.3592
  37. age_class(50,60] 0.3216 3.109 0.3148 0.3285
  38. age_class(60,70] 0.2715 3.683 0.2658 0.2774
  39. age_class(70,80] 0.2428 4.119 0.2373 0.2485
  40. age_class(80,90] 0.1988 5.030 0.1938 0.2040
  41. age_class(90,100] 0.1320 7.573 0.1261 0.1383
  42.  
  43. Concordance= 0.619 (se = 0.001 )
  44. Rsquare= 0.016 (max possible= 0.92 )
  45. Likelihood ratio test= 40343 on 11 df, p=0
  46. Wald test = 42384 on 11 df, p=0
  47. Score (logrank) test = 47349 on 11 df, p=0
  48.  
  49. > validation <- cox.zph(mod1)
  50. > validation
  51. rho chisq p
  52. sex1 -0.028494 1.72e+02 0.00e+00
  53. vaccination 0.210335 9.30e+03 0.00e+00
  54. age_class(10,20] 0.009616 1.96e+01 9.65e-06
  55. age_class(20,30] -0.005949 7.50e+00 6.18e-03
  56. age_class(30,40] -0.004818 4.92e+00 2.66e-02
  57. age_class(40,50] -0.000899 1.71e-01 6.79e-01
  58. age_class(50,60] 0.007783 1.28e+01 3.45e-04
  59. age_class(60,70] 0.001600 5.40e-01 4.62e-01
  60. age_class(70,80] -0.013171 3.66e+01 1.47e-09
  61. age_class(80,90] -0.021582 9.90e+01 0.00e+00
  62. age_class(90,100] -0.018040 6.92e+01 1.11e-16
  63. GLOBAL NA 1.05e+04 0.00e+00
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