knitr: include figures in report *and* output figures to separate files

Question

Not only would I like my figures to appear in my knitr-generated report, but I would also like to output them to separate files, too. To do this, I have included code like t

Answer 1

Keyword dev='pdf' as explained by Yihui here http://yihui.name/knitr/options/

Together with other options I have found useful:

```{r 'setup', echo = FALSE, cache = FALSE}
    opts_chunk$set(dev = c('pdf', 'png'), 
        fig.align = 'center', fig.height = 5, fig.width = 8.5, 
        pdf.options(encoding = "ISOLatin9.enc")) 
```

Answer 2

Use the option self_contained: no if you are using html_document, or keep_tex: yes if you use pdf_document, so that rmarkdown will not remove the figure files after rendering the output document.