question on survminer visualizing survival curves

[kibtes]

I was following your Survival Analysis Basics Tutorial and while trying to execute the plotting under the visualizing survival curves section

Expected behavior

Actual behavior

Error in as.vector(y) : attempt to apply non-function
In addition: Warning message:
In .get_data(fit, data = data) :
  The `data` argument is not provided. Data will be extracted from model fit.

But the second visualizing curve works yet it stills the following warning message

Warning message:
In .get_data(fit, data = data) :
  The `data` argument is not provided. Data will be extracted from model fit.

session_info()

# please paste here the result of
sessionInfo()
R version 3.3.2 (2016-10-31)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)

locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                           LC_TIME=English_United States.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] survminer_0.3.1 ggpubr_0.1.2    ggplot2_2.1.0   survival_2.41-3

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.6      km.ci_0.5-2      knitr_1.14       magrittr_1.5     splines_3.3.2    mnormt_1.5-5     munsell_0.4.3   
 [8] xtable_1.8-2     colorspace_1.2-6 lattice_0.20-34  KMsurv_0.1-5     R6_2.1.3         stringr_1.1.0    plyr_1.8.4      
[15] dplyr_0.5.0      cmprsk_2.2-7     tools_3.3.2      parallel_3.3.2   grid_3.3.2       data.table_1.9.6 broom_0.4.2     
[22] gtable_0.2.0     nlme_3.1-128     psych_1.7.5      DBI_0.5-1        survMisc_0.5.4   digest_0.6.10    assertthat_0.1  
[29] tibble_1.2       Matrix_1.2-7.1   gridExtra_2.2.1  tidyr_0.6.0      reshape2_1.4.1   labeling_0.3     stringi_1.1.1   
[36] scales_0.4.0     chron_2.3-47     foreign_0.8-67   zoo_1.7-14

[kassambara]

Please install the latest developmental version from github, and let me know if it still fails.

To avoid the warning, please specify the argument data to the ggsurvplot() function.

[kibtes]

Thank you for your prompt response. The developmental version from github works.

[kassambara]

Great, so we can close this issue

[kibtes]

Following the Tutorial on Cox proportional hazard regression am having an error while trying to compute the following line of code ggsurvplot(survfit(res.cox),color="#2E9FDF",ggtheme=theme_minimal())

Expected Result:

Actual Result:

Error: object of type 'symbol' is not subsettable
In addition: Warning message:
color should be a coloring variable name. To change color palette, use the argument palette= '#2E9FDF'.

to avoid the warning message i changed the color to palette. But can't really understand the error. and my session info is

sessionInfo()
R version 3.3.2 (2016-10-31)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)

locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                           LC_TIME=English_United States.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] survminer_0.3.1.999  ggpubr_0.1.2.999     ggplot2_2.2.1        devtools_1.12.0      survival_2.41-3     
 [6] RevoUtilsMath_10.0.0 RevoUtils_10.0.2     RevoMods_10.0.0      MicrosoftML_1.0.0    mrsdeploy_1.0       
[11] RevoScaleR_9.0.1     lattice_0.20-34      rpart_4.1-10        

loaded via a namespace (and not attached):
 [1] zoo_1.7-14             reshape2_1.4.1         purrr_0.2.2            splines_3.3.2          colorspace_1.2-6      
 [6] CompatibilityAPI_1.1.0 chron_2.3-47           survMisc_0.5.4         foreign_0.8-67         withr_1.0.2           
[11] DBI_0.5-1              foreach_1.4.3          plyr_1.8.4             stringr_1.1.0          munsell_0.4.3         
[16] gtable_0.2.0           codetools_0.2-15       psych_1.7.5            memoise_1.0.0          labeling_0.3          
[21] knitr_1.14             mrupdate_1.0.0         curl_2.3               parallel_3.3.2         broom_0.4.2           
[26] Rcpp_0.12.6            xtable_1.8-2           scales_0.4.1           cmprsk_2.2-7           jsonlite_1.2          
[31] km.ci_0.5-2            gridExtra_2.2.1        mnormt_1.5-5           digest_0.6.10          stringi_1.1.1         
[36] dplyr_0.5.0            KMsurv_0.1-5           grid_3.3.2             tools_3.3.2            magrittr_1.5          
[41] lazyeval_0.2.0         tibble_1.3.0           tidyr_0.6.2            Matrix_1.2-7.1         data.table_1.9.6      
[46] rstudioapi_0.6         assertthat_0.1         httr_1.2.1             iterators_1.0.8        R6_2.1.3              
[51] nlme_3.1-128           git2r_0.18.0     

[kassambara]

th

[kassambara]

Thank you for pointing this out. I'll fix this as soon as possible.