consolidate three function into one

Hi Richard,

Thank you so much!!  I understand the problem now,  I assign a name to the
"ggsurvplot" object and then add print(fig) at bottom of function
definition, now figure gets printed on screen.

Ding

# function to generate RFS curves
RFS <- function( inputfile, N ) {
  cluster<- survfit(Surv(RFS_days2, OV_Had_a_Recurrence_CODE) ~ clusters,
                    data = inputfile)
  if( N==2) {palette <- c("red", "black")
  legend.labs <- c("Cluster1", "Cluster2")
                     }

  else if(N==3) {palette <- c("red", "black", "green")
  legend.labs <- c("Cluster1", "Cluster2", "Cluster3")
                              }
  else {palette <- c("red", "black","green", "blue")
  legend.labs <- c("Cluster1", "Cluster2", "Cluster3", "Cluster4")
           }


  fig <-ggsurvplot(cluster, data = inputfile, risk.table = F,
             palette = palette,
             ylim=c(0,1),ggtheme = theme_bw(),xlab="Relapse Free Suvival
(Days)",
             main = "Survival curve",pval = TRUE,font.x =  16,font.y = 16,
             font.tickslab = 14,font.legend =c(14,"plain","black"),
             legend = "bottom",
             legend.title = "Tree Cluster",
             legend.labs = legend.labs,
             lty=1, lwd=3)
  print(fig)
                                                     }

-----Original Message-----
From: Richard M. Heiberger [mailto:rmh at temple.edu]
Sent: Sunday, January 14, 2018 1:34 PM
To: Ding, Yuan Chun <ycding at coh.org>
Cc: Bert Gunter <bgunter.4567 at gmail.com>; r-help at r-project.org
Subject: Re: [R] consolidate three function into one

FAQ 7.22
You must print a ggplot object, for example with
print(m52.2cluster)

For the FAQ, run the line
   system.file("../../doc/FAQ")
in R on your computer.
Open up the resulting filepath in your favorite editor and scroll down to
7.22

On Sun, Jan 14, 2018 at 4:21 PM, Ding, Yuan Chun <ycding at coh.org> wrote:

Hi Bert,

I am sorry to bother you on weekend.

I am still struggling on defining a correct function.

I first defined the function RFS (see below), then run it by provide the

two argument.

m52.2cluster <-RFS(inputfile =allinfo_m52, N=2 )

I do not get error message, but no figure displays on screen. I do not

know what is going on.

Can you help me a little more on this issue?

Thank you,

Ding

# function to generate RFS
RFS <- function( inputfile, N ) {
  cluster<- survfit(Surv(RFS_days2, OV_Had_a_Recurrence_CODE) ~ clusters,
                               data = inputfile)

         if( N==2) {palette <- c("red", "black")
                           legend.labs <- c("Cluster1", "Cluster2")
                            }

  else if(N==3) {palette <- c("red", "black", "green")
                      legend.labs <- c("Cluster1", "Cluster2",

"Cluster3")

                            }

                 else {palette <- c("red", "black","green", "blue")
                           legend.labs <- c("Cluster1", "Cluster2",

"Cluster3", "Cluster4")

                          }

  ggsurvplot(cluster, data = inputfile, risk.table = F,
             palette = palette,
             ylim=c(0,1),ggtheme = theme_bw(),xlab="Relapse Free Suvival

(Days)",

             main = "Survival curve",pval = TRUE,font.x =  16,font.y =

16,

             font.tickslab = 14,font.legend =c(14,"plain","black"),
             legend = "bottom",
             legend.title = "Tree Cluster",
             legend.labs = legend.labs,
             lty=1, lwd=3)
                                }

From: Bert Gunter [mailto:bgunter.4567 at gmail.com]
Sent: Sunday, January 14, 2018 9:50 AM
To: Ding, Yuan Chun <ycding at coh.org>
Subject: Re: [R] consolidate three function into one

I have not looked at your code *at all*, so I am not sure what exactly

you mean by "consolidate."

Is this what you are after?

f1 <- function(...) { code 1}
f2 <- function(...) { code 2}
f3 <- function(...) { code 3}
## can be "consolidated as":
f <- function( someargs, ...){
if( expr(someargs)) f1(...)
else if(expr2(someargs)) f2(...)
else f3(...)
}
The "..." argument to f can soak up any named additional arguments you

wish to pass to f1, f2, or f3.

My apologies if this is offbase or too vague, and feel free to ignore in

that case. I don't have the patience to go trough your code in detail.
Others may and give you what you want.

Cheers,
Bert



Bert Gunter

"The trouble with having an open mind is that people keep coming along

and sticking things into it."

-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )

On Sun, Jan 14, 2018 at 9:17 AM, Ding, Yuan Chun <ycding at coh.org<mailto:

ycding at coh.org>> wrote:

HI R users,

I construct dendrogram tree and cut the tree into different clusters,

then generate survival curves by the following three functions. All
variables are included in an inputfile.

Can you help me to consolidate the following three function into one

functions?  I thought about using if  else function, but not sure how to do
it.

Thank you,

Ding

# function to generate RFS
RFS2cluster <- function( inputfile ) {
  cluster2<- survfit(Surv(RFS_days, OV_Had_a_Recurrence_CODE) ~ clusters,
                               data = inputfile)

  ggsurvplot(cluster2, data = inputfile, risk.table = F,
             palette = c("red", "black"),
             ylim=c(0,1),
             ggtheme = theme_bw(),
             xlab="Relapse Free Suvival (Days)",
             main = "Survival curve",
             pval = TRUE,
             font.x =  16,
             font.y = 16,
             font.tickslab = 14,
             font.legend =c(14,"plain","black"),
             legend = "bottom",
             legend.title = "Tree Cluster",
             legend.labs = c("Cluster1", "Cluster2"), lty=1, lwd=3) }

RFS3cluster <- function( inputfile ) {
  cluster3<- survfit(Surv(RFS_days, OV_Had_a_Recurrence_CODE) ~ clusters,
                     data = inputfile)

  ggsurvplot(cluster3, data = inputfile, risk.table = F,
             palette = c("red", "black", "green"),
             ylim=c(0,1),
             ggtheme = theme_bw(),
             xlab="Relapse Free Suvival (Days)",
             main = "Survival curve",
             pval = TRUE,
             font.x =  16,
             font.y = 16,
             font.tickslab = 14,
             font.legend =c(14,"plain","black"),
             legend = "bottom",
             legend.title = "Tree Cluster",
             legend.labs = c("Cluster1", "Cluster2", "Cluster3"),
lty=1, lwd=3) }

RFS4cluster <- function( inputfile ) {
  cluster4<- survfit(Surv(RFS_days, OV_Had_a_Recurrence_CODE) ~ clusters,
                     data = inputfile)

  ggsurvplot(cluster4, data = inputfile, risk.table = F,
             palette = c("red", "black", "green", "blue"),
             ylim=c(0,1),
             ggtheme = theme_bw(),
             xlab="Relapse Free Suvival (Days)",
             main = "Survival curve",
             pval = TRUE,
             font.x =  16,
             font.y = 16,
             font.tickslab = 14,
             font.legend =c(14,"plain","black"),
             legend = "bottom",
             legend.title = "Tree Cluster",
             legend.labs = c("Cluster1", "Cluster2", "Cluster3",
"Cluster4"), lty=1, lwd=3) }

-----Original Message-----
From: R-help
[mailto:r-help-bounces at r-project.org<mailto:r-help-bounces at r-project.o
rg>] On Behalf Of imane hajar
Sent: Friday, January 12, 2018 7:42 AM
To: r-help at r-project.org<mailto:r-help at r-project.org>
Subject: [R] Help with packages (methods, stats, stats4)

[Attention: This email came from an external source. Do not open
attachments or click on links from unknown senders or unexpected
emails.]





hello,
Can you please give me a hand with this problem,well i can't install
these
packages:
- stats
- methods
- stats4

when i tried the following command :  *library(help = "stats") * , it

gave me this output (*see picture*), so i contacted the Maintainer of the
package at (*R-core at r-project.org<mailto:R-core at r-project.org> <
R-core at r-project.org<mailto:R-core at r-project.org>>*) but he said that i
write to the wrong place.

(i want to install those packages in order to use the "DVstats"
package)

(i have the latest version of R (3.4.3 ) and Rstudio(1.2.240) )

thank you
Regards


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