[英]conducting a Tukey test on R
I'm trying to a Tukey test on the data (bmt), (KMsurv) and focusing on the variables t2 and d3 only.我正在尝试对数据 (bmt)、(KMsurv) 进行 Tukey 测试,并仅关注变量 t2 和 d3。 t2: the disease free survival time (time to relapse, death or end of study) d3: indicator variable for disease free.
t2:无病生存时间(复发、死亡或研究结束的时间) d3:无病的指标变量。 d3 = 1 if dead or relapsed, or d3 = 0 if alive or disease free.
如果死亡或复发,则 d3 = 1,如果活着或没有疾病,则 d3 = 0。 The data can be obtained using the KMsurv package.
可以使用 KMsurv 包获取数据。 The patients have been grouped into risk categories or groups, represented by the variable g in the data set.
患者已被分组为风险类别或组,由数据集中的变量 g 表示。
g = 1; ALL (acute lymphoblastic leukemia) 38 patients
g = 2; AML low risk (acute myeloctic leukemia) 54 patients
g = 3; AML high risk (acute myeloctic leukemia) 45 patients
library(KMsurv)
data(bmt)
bmt
library(survival)
# run the ANOVA and print out the ANOVA table:
anova1 <- aov( group ~ t2+d3, data = bmt )
summary(anova1)
TukeyHSD(anova1)
But there is an error message appears但是出现错误信息
Error in TukeyHSD.aov(anova1) :no factors in the fitted model In addition: Warning messages: 1: In replications(paste("~", xx), data = mf) : non-factors ignored: t2 2: In replications(paste("~", xx), data = mf) : non-factors ignored: d3
I have installed the package multcomp
but I'm not sure if this package is necessary.我已经安装了包
multcomp
但我不确定这个包是否是必要的。
How can I fix that error?我该如何修复该错误?
I don't see the need to perform an ANOVA here since your outcome is relapse-free survival.我认为没有必要在这里进行方差分析,因为您的结果是无复发生存。 If you really want to, and then do a Tukey test, then the command would be:
如果你真的想,然后做一个 Tukey 测试,那么命令将是:
anova1 <- aov(t2 ~ factor(group), data = bmt)
summary(anova1)
Df Sum Sq Mean Sq F value Pr(>F)
factor(group) 2 7186442 3593221 7.115 0.00116 **
Residuals 134 67675770 505043
TukeyHSD(anova1)
Tukey multiple comparisons of means
95% family-wise confidence level
Fit: aov(formula = t2 ~ factor(group), data = bmt)
$`factor(group)`
diff lwr upr p adj
2-1 456.35673 99.72036 812.9931 0.0081370
3-1 -22.13216 -393.20690 348.9426 0.9890452
3-2 -478.48889 -818.45440 -138.5234 0.0031404
But that ignores the event (variable d3), so I wouldn't take much notice of the results.但这忽略了事件(变量 d3),所以我不会太在意结果。
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