cv.glmnet() 的 glment 错误

Question

when I analyse my data with this code(glment Rpackage), met this error:

lasso_fit <- cv.glmnet(x, y, family='cox', type.measure = 'deviance') Error in response.coxnet(y): negative event times encountered; not permitted for Cox family

this is my code

x <- as.matrix(survival_cancer[,gsub(resSigAll@rownames, pattern = '-', replacement = '_')])
y <- survival_cancer[,c('overall_survival', 'censoring_status')]
names(y) <- c('time', 'status')
y$time <- as.double(y$time)
y$status <- as.double(y$status)
y <- as.matrix(survival::Surv(y$time, y$status))
lasso_fit <- cv.glmnet(x, y, family='cox', type.measure = 'deviance')

the data type of x

         gene1 gene2 gene3 gene4 gene5 gene6 gene7 gene8 gene9 gene10 gene11 
sample1
sample2
sample3
sample4
sample5
sample6
sample7
sample
sample

the type of y:

 time  status
 100      0
  90      1

I don't konw where is the problem?

Answer 1

The error message is referenced from line#5 of coxnet function written at https://github.com/jeffwong/glmnet/blob/master/R/coxnet.R .

Kindly check if the summation of your time outcome variable is less than 0 or if the vector itself has entries = 0.