Hi there
I am doing some survival analysis on TCGA patients of my interest. I have to draw Kaplan-meier curve, which I am able to do with "survival" package in R using their default "aml" data. Same format I applied on my samples' data and got some curve. But, I have doubt whether I am doing it right way or not.
e.g. survival package has default data format as follows
> aml
time status x
1 9 1 Maintained
2 13 1 Maintained
3 13 0 Maintained
......
and my prepared data format for GBM tissue samples is as follows
time status x
1 11.9333 1 class1
2 4.8000 1 class2
3 18.6000 1 class1
....
I have doubt regarding status tag (middle column i.e. all are 1 ) in my data; as my data does not contain information of censored subjects. I have taken all dead patients and time is reported in months for corresponding dead patients (days_to_death column). All this data has been taken from clinical_patient_gbm.txt file. So my question is "Am I MISSING SOMETHING" ? like "Censored data". If yes, then how to obtain censored data from TCGA and from which file (followup file)?
Thanks
0 answers
No answers yet.
Log in to answer this question.
Why have you biased the dataset to the dead individuals only? Have a look for
days_to_last_follow_upor similar to complement your current datasetYou mean he should add the
days_to_last_follow_upto the current dataset as censored data(status is '0')?