coxph won't converge when including categorical (factor) variables
I don't know much about your problem, but if you want help you are going to need to learn to communicate effectively. This may help: http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example --------------------------------------------------------------------------- Jeff Newmiller The ..... ..... Go Live... DCN:<jdnewmil at dcn.davis.ca.us> Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/Batteries O.O#. #.O#. with /Software/Embedded Controllers) .OO#. .OO#. rocks...1k --------------------------------------------------------------------------- Sent from my phone. Please excuse my brevity.
E Joffe <ejoffe at hotmail.com> wrote:
Hello, [rephrasing and reposting of a previous question (that was not answered) with new information] I have a dataset of 371 observations. When I run coxph with numeric variables it works fine. However, when I try to add factor (categorical) variables it returns "Ran out of iterations and the model did not converge" Of note, when I restructure all factors to binary variables with dummy and use glmnet-lasso the model converges. Here are examples of the code and output (including summary description of the variables):
maxSTree.cox <- coxph (Surv(time,status)~Chemo_Simple, data=dataset)
Warning message: In fitter(X, Y, strats, offset, init, control, weights = weights, : Ran out of iterations and did not converge
summary (dataset$Chemo_Simple)
Anthra_HDAC Anthra_Plus ArsenicAtra
ATRA ATRA_GO
0 163 2 12
0 2
ATRA_IDA Demeth_HistoneDAC Flu_HDAC Flu_HDAC_plus
HDAC_Clof HDAC_only
0 34 37 4
24 1
HDAC_Plus LowArac LowDAC_Clof MYLO_IL11
Phase1
4 8 30 5
5
SCT StdARAC_Anthra StdAraC_Plus Targeted
VNP40101M
0 0 0 13
23
HELP !!!!
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