Rmarkdown Removes Citation Hyperlink

Rmarkdown removes citation hyperlink

By default pandoc will do the rendering of the citations. I see two alternatives.

1. Use \citet{sharpe} in the Rmd instead of @sharpe. Downside: you can only render the Rmd into pdf.
2. Use the --natbib argument. Downside: You need an extra bibtex step when rendering into pdf.

Update: You can also provide the option link-citations: true in your YAML (since pandoc v1.16) and keep the pandoc syntax for citations.

In R Markdown, how do I create citations to references with a hyperlink?

You should be able to fix this by adding link-citations: true in your YAML.

See this other question on SO for more details: Rmarkdown removes citation hyperlink

Disable all auto-hyperlink generation Rmarkdown pdf

You can use

output: 
  pdf_document:
    toc: yes
header-includes:
  - \hypersetup{draft}

to disable hyperref, c.f. http://www.tug.org/applications/hyperref/manual.html#x1-50003.1.

Cross-reference citations with bibliography in R Markdown PDFs

Ok, I have this checked out by myself now and it was quite easy: We have to set this render options in the YAML:

urlcolor: blue
linkcolor: blue

By this time I've discarded the jump-back option.

Internal links in rmarkdown don't work

You're not setting the anchors correctly.

Try the following:

# start

```{r results="asis",tidy=FALSE,eval=TRUE}
cat("click here: [link1](#test1)")
```

click here: [link2](#test1)

\pagebreak

# test 3 {#test3}

\pagebreak

#test 2 {#test2}

\pagebreak

#test 1 {#test1}

---

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