[BioC] cox PH model - KM curve

Heidi Dvinge heidi at ebi.ac.uk
Thu Jul 7 10:26:29 CEST 2011

Hi Adrian,

have you tried playing with the "survival" package? Functions such as
Surv(), coxph() and survfit() could probably help you do what you're


> Dear group:
> I have gene expression data matrix (after RMA) as a matrix. In another
> table (as data frame) I have survival data. I have 25 genes for which
> I want to plot a Kaplan-meier curves based on cox model for these 25
> genes. Is there a workflow to do this analysis.
> I tried phenoTest, however I do not know how to make use of
> heatmapPhenoTest function on a given gene.
> I appreciate your help. Thanks
> Adrian.
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