Include HTML Files in R Markdown File

Include HTML files in R Markdown file?

Here is a hack (probably inelegant)...idea is to directly insert HTML programmatically in Rmd and then render Rmd.

temp.Rmd file:

---
title: "Introduction"
author: "chinsoon12"
date: "April 10, 2016"
output: html_document
---

<<insertHTML:[test.html]

etc, etc, etc

```{r, echo=FALSE}
htmltools::includeHTML("test.html")
```

etc, etc, etc

test.html file:

<html>

    <head>
    <title>Title</title>
    </head>

    <body>

        <p>This is an R HTML document. When you click the <b>Knit HTML</b> button a web page 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:</p>

        <p>test test</p>

    </body>
</html>

verbose code to replace Rmd code with HTML code and then render (can probably be shortened by a lot)

library(stringi)
subHtmlRender <- function(mdfile, htmlfile) {
    #replace <<insertHTML:htmlfile with actual html code
    #but without beginning white space
    lines <- readLines(mdfile)
    toSubcode <- paste0("<<insertHTML:[",htmlfile,"]")
    location <- which(stri_detect_fixed(lines, toSubcode) )
    htmllines <- stri_trim(readLines(htmlfile))

    #render html doc
    newRmdfile <- tempfile("temp", getwd(), ".Rmd")
    newlines <- c(lines[1:(location-1)],
                  htmllines,
                  lines[min(location+1, length(lines)):length(lines)])  #be careful when insertHTML being last line in .Rmd file
    write(newlines, newRmdfile)
    rmarkdown::render(newRmdfile, "html_document")
    shell(gsub(".Rmd",".html",basename(newRmdfile),fixed=T))
} #end subHtmlRender

subHtmlRender("temp.Rmd", "test.html")

EDIT: htmltools::includeHTML also works with the sample files that I provided. Is it because your particular html does not like UTF8-encoding?

EDIT: taking @MikeWilliamson comments into feedback

I tried the following

copied and pasted animated_choropleth.html into a blank .Rmd
remove references to cloudfare.com as I had access issues while
rendering (see below)
knit HTML
put back those cloudfare weblinks
put the graphs in the same folder as the rendered html
open the HTML

I appear to get back the html but am not sure if the result is what you expect

Are you also facing the same issue in pt 2? You might want to post the error message and ask for fixes :). This was my error message

pandoc.exe: Failed to retrieve http://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.1.1/css/bootstrap.min.css
FailedConnectionException2 "cdnjs.cloudflare.com" 80 False getAddrInfo: does not exist (error 11001)
Error: pandoc document conversion failed with error 61

Post-processing R Markdown-generated html files

If your post processing is specifically about MathJax, you might consider setting your output yaml to the following which will download local copies of libraries such as MathJax and link to them.

output: 
  html_document:
    self_contained: FALSE
    mathjax: local

How can I knit a Rmarkdown file into a html file which embeds plots?

What is the equivalent commands to RStudio's "knit to html" button?

Submit your output in a YAML header and then use

rmarkdown::render("Your-RMD-file.Rmd")

Or see the documentation for the render function and their arguments.

How to get the HTML code of a RMarkdown Document?

Render the file like you normally would and then once it's rendered either right click on the file and select open with and then open with a text editor. Or open the file in a browser and then right click and choose view source.

That's how to view the html code. I'm not sure if this will solve your overall problem though...
I'm not familiar with Google sites. Is there an option to just upload an html file?

Include HTML Files in R Markdown File