Hi, I have to generate Kaplan-Meier curves and do some survival analysis. From what I understand the 'Survival' package in R is the best bet (please give me other options if you think otherwise). I've seldom had trouble installing any packages in R - but this one is having me puzzled. I do not have any 'older' versions of the package installed: install.packages("survival") --- Please select a CRAN mirror for use in this session --- trying URL 'http://cran.cs.wwu.edu/bin/windows/contrib/2.15/survival_2.37-4.zip' Content type 'application/zip' length 3040152 bytes (2.9 Mb) opened URL downloaded 2.9 Mb package ???survival??? successfully unpacked and MD5 sums checked Warning: cannot remove prior installation of package ???survival??? The downloaded binary packages are in <...edited> library(survival) Error in library(survival) : there is no package called ???survival??? What am I doing incorrectly? -- output of sessionInfo(): R version 2.15.2 (2012-10-26) Platform: x86_64-w64-mingw32/x64 (64-bit) locale: [1] LC_COLLATE=English_United States.1252 [2] LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_2.15.2 -- Sent via the guest posting facility at bioconductor.org.

On Fri, Jul 12, 2013 at 2:02 PM, Ranjani R [guest] <guest at="" bioconductor.org=""> wrote: > > Hi, > I have to generate Kaplan-Meier curves and do some survival analysis. From what I understand the 'Survival' package in R is the best bet (please give me other options if you think otherwise). > I've seldom had trouble installing any packages in R - but this one is having me puzzled. I do not have any 'older' versions of the package installed: > > install.packages("survival") > --- Please select a CRAN mirror for use in this session --- > trying URL 'http://cran.cs.wwu.edu/bin/windows/contrib/2.15/survival_2.37-4.zip' > Content type 'application/zip' length 3040152 bytes (2.9 Mb) > opened URL > downloaded 2.9 Mb > > package ???survival??? successfully unpacked and MD5 sums checked > Warning: cannot remove prior installation of package ???survival??? > > The downloaded binary packages are in <...edited> > > library(survival) > Error in library(survival) : there is no package called ???survival??? > > What am I doing incorrectly? > Emailing the bioconductor list to ask about a CRAN package. ;-) Dan > > -- output of sessionInfo(): > > R version 2.15.2 (2012-10-26) > Platform: x86_64-w64-mingw32/x64 (64-bit) > > locale: > [1] LC_COLLATE=English_United States.1252 > [2] LC_CTYPE=English_United States.1252 > [3] LC_MONETARY=English_United States.1252 > [4] LC_NUMERIC=C > [5] LC_TIME=English_United States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > loaded via a namespace (and not attached): > [1] tools_2.15.2 > > > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor

Hi Ranjani, On 7/12/2013 5:02 PM, Ranjani R [guest] wrote: > Hi, > I have to generate Kaplan-Meier curves and do some survival analysis. From what I understand the 'Survival' package in R is the best bet (please give me other options if you think otherwise). > I've seldom had trouble installing any packages in R - but this one is having me puzzled. I do not have any 'older' versions of the package installed: > > install.packages("survival") > --- Please select a CRAN mirror for use in this session --- > trying URL 'http://cran.cs.wwu.edu/bin/windows/contrib/2.15/survival_2.37-4.zip' > Content type 'application/zip' length 3040152 bytes (2.9 Mb) > opened URL > downloaded 2.9 Mb > > package ???survival??? successfully unpacked and MD5 sums checked > Warning: cannot remove prior installation of package ???survival??? > > The downloaded binary packages are in<...edited> > > library(survival) > Error in library(survival) : there is no package called ???survival??? > > What am I doing incorrectly? First, you are sending this question to the wrong list. The survival package isn't part of BioC, so you should be asking on R-help. Second, the survival package is part of the set of recommended packages, and comes by default with all binary installations of R. (http://cran.r-project.org/doc/FAQ/R-FAQ.html#Add_002don-packages- from-CRAN) Oh wait, there are three! Third, using an outdated version of R. Upgrade R to 3.0.1, and you will have a functioning survival package already installed. Best, Jim > > > -- output of sessionInfo(): > > R version 2.15.2 (2012-10-26) > Platform: x86_64-w64-mingw32/x64 (64-bit) > > locale: > [1] LC_COLLATE=English_United States.1252 > [2] LC_CTYPE=English_United States.1252 > [3] LC_MONETARY=English_United States.1252 > [4] LC_NUMERIC=C > [5] LC_TIME=English_United States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > loaded via a namespace (and not attached): > [1] tools_2.15.2 > > > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician University of Washington Environmental and Occupational Health Sciences 4225 Roosevelt Way NE, # 100 Seattle WA 98105-6099