Adding Line Colour Changes Line Position about ggfortify HOT 8 OPEN

You want to control the colors on each curve? try this:

p1 <- autoplot(survival_obj)
p1 <- p1 + scale_colour_manual(values = c('indianred2','seagreen'))

I was having the same problem and when debugging found that it uses geom_step function and this is how to control the colors :)

Despite all this, I think the implementation on ggfortify should be more clear on that option or corrected.

Cheers

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@averissimo thx for the reply. It is correct that we should specify multi colors like ggplot2 does.
Maybe better to update the doc.

@DarioS Sorry to late reply, I missed the notification.

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I think that it would be better to provide abstraction of this to the end-user, as the function currently tries to do unsuccessfully. The underlying ggplot2 framework should be hidden away where possible.

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OK, will consider the fix.

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@DarioS I'm guessing that you want to make all lines red regardless of which group they are. Am I correct?

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Actually, it would be desirable to specify one colour per factor level. I only used "red" because the surv.colour option doesn't allow a vector of values.

> library(survival)
> autoplot(survfit(Surv(time, status) ~ sex, data = lung), surv.colour = c("red", "blue"))
Error: Aesthetics must be either length 1 or the same as the data (208): colour

Note that the number of samples in the error message is wrong.

> dim(lung)
[1] 228  10

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I will take a look tomorrow. I think the issue is with the way that geom_factory() works. Am I right @sinhrks ? I likely fix would for geom_factory() to check if the column exists in the data if not, check if it is a valid colour.

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A pull request for fixing this would be appreciated! @lselzer @DarioS @averissimo

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