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When you click the Knit button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:

devtools::install_github("timelyportfolio/sunburstR")
## Error in get(genname, envir = envir) : object 'testthat_print' not found
## Skipping install of 'sunburstR' from a github remote, the SHA1 (9f474397) has not changed since last install.
##   Use `force = TRUE` to force installation
library(sunburstR)
# read in sample visit-sequences.csv data provided in source
# https://gist.github.com/kerryrodden/7090426#file-visit-sequences-csv

# make 1st orange and all others green
#  use color names instead of HEX
colors2 <- list(
  domain=unique(unlist(strsplit(Book8$V1,"-"))))

colors2 = as.data.frame(colors2)
colors2$range = colors2$domain

for(i in 1:nrow(colors2))
{
  if(colors2$range[i] == "normal")
  {
    colors2$range[i]= "#6bacb2"
  }
  else if(colors2$range[i] == "warning")
  {
    colors2$range[i]= "#f09034"
  }
  else if(colors2$range[i] == "urgent")
  {
    colors2$range[i]= "#dc324a"
  }
  else if(colors2$range[i] == "quality")
  {
    colors2$range[i]= "blue"
  }
  else if(colors2$range[i] == "palpitations")
  {
    colors2$range[i]= "#9300ff"
  }
   else if(colors2$range[i] == "no_symptoms")
  {
    colors2$range[i]= "white"
  }
  else if(colors2$range[i] == "fatigue")
  {
    colors2$range[i]= "#f0ceff"
  }
  else if(colors2$range[i] == "shortness_of_breath")
  {
    colors2$range[i]= "#f0ceff"
  }
  else if(colors2$range[i] == "lightheaded")
  {
    colors2$range[i]= "#f0ceff"
  }
  else if(colors2$range[i] == "other")
  {
    colors2$range[i]= "#f0ceff"
  }
  else if(colors2$range[i] == "confused")
  {
    colors2$range[i]= "#f0ceff"
  }
  else if(colors2$range[i] == "chest_pains")
  {
    colors2$range[i]= "#f0ceff"
  }
   else if(colors2$range[i] == "1")
  {
    colors2$range[i]= "white"
   }
   else if(colors2$range[i] == "2")
  {
    colors2$range[i]= "#FFFFD4"
   }
   else if(colors2$range[i] == "3")
  {
    colors2$range[i]= "#FEE391"
   }
   else if(colors2$range[i] == "4")
  {
    colors2$range[i]= "#FEC44F"
   }
   else if(colors2$range[i] == "5")
  {
    colors2$range[i]= "#D95F0E"
   }
  else
  {
    colors2$range[i]="NA"
  }
}

colors2 = as.list(colors2)


sunburst(Book8, colors=colors2)
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