[R] syvcoxph and cox.zph for testing the PH assumption

[Therneau, Terry M., Ph.D.]

On 7/11/21 5:00 AM, r-help-request using r-project.org wrote:
> Hello, is it kosher to call cox.zph on a syvcoxph model fit? I see that
> someone proposed a modified version of cox.zph that uses resid(fit,
> 'schoenfeld', **weighted=TRUE**).
> 
> https://stats.stackexchange.com/questions/265307/assessing-proportional-hazards-assumption-of-a-cox-model-with-caseweights
> Is that all it takes?
> Thanks,
> Youyi

The cox.zph function does a formal score test.  No, it does not account for robust 
variance.  I hadn't considered that case, but will now think about it.  It is quite easy 
to show that there is a problem: just give everyone a weight of 100.

The stackexchange conversation was new to me.  The solution there won't work with the 
current code, which does not make use of resid().  It has been updated to do the proper 
score test, the older version of cox.zph, which they modified, used an approximation.

Terry T.