Poor resolution in knitr using Rmd

Question

I have a .Rmd file and I am trying to create a .docx file via the function pandoc.

I want to have a figure with final resolution of 504x504 pixels (i.e., 7x7inch with 72dpi). Unfortunately, the default 72 dpi is too poor in quality, and I would like to increase it to, say, 150 dpi without altering the final resolution (so it will already have the correct size within the .docx file). If I keep options fig.width and fig.height=7 and set dpi=150, I get the quality I want but the final resolution increases and the figure blows outside the .docx margins. I tried playing with the arguments out.width and out.height but when I include those it just doesn't plot anything in the final .docx.

Ideas?

Example .Rmd code:

My title
-------------------------

*(this report was produced on: `r as.character(Sys.Date())`)*  

That's my plot

```{r echo=FALSE}
    plot(0,0,type="n",xlim=c(0,500), ylim=c(-12,0), las=1)
    color  <-  rainbow(500)
    text(380,-1,"Test",pos=4)
    lseq   <-  seq(-6,-2,length.out=500)
    for(j in seq_along(lseq)) {
        lines(c(400,450), rep(lseq[j], 2), col=color[j])
    }
    polygon(c(400,450,450,400), c(-6,-6,-2,-2), lwd=1.2)
```

Transforming into .docx

library(knitr)
library(markdown)
knit("example.Rmd")  # produces the md file
pandoc("example.md", format = "docx") #prodces the .docx file

If I try to rescale the figure, it just does not work. Below:

My title
-------------------------

*(this report was produced on: `r as.character(Sys.Date())`)*  

That's my plot

```{r echo=FALSE, dpi=150, fig.width=7, fig.height=7, out.width=504, out.height=504}
    plot(0,0,type="n",xlim=c(0,500), ylim=c(-12,0), las=1)
    color  <-  rainbow(500)
    text(380,-1,"Test",pos=4)
    lseq   <-  seq(-6,-2,length.out=500)
    for(j in seq_along(lseq)) {
        lines(c(400,450), rep(lseq[j], 2), col=color[j])
    }
    polygon(c(400,450,450,400), c(-6,-6,-2,-2), lwd=1.2)
```

Rapids

perhaps #14830291 will provide inspiration – Ma

When I save png files, I use something like: ppi = 300; png("mygraph.png", width=6*ppi, height=6*ppi, res=ppi) – Gerhan

@Gerhan that is equivalent to fig.width=6, fig.height=6, dpi=300 in knitr – Tinea

out.width=504 is probably not enough, since you did not specify the unit, although you probably mean pixels out.width='504px'; even with that, I'm not sure if pandoc can do a good job setting the figure size in .docx; I do not have MS Word, so I cannot verify it – Tinea

Unfortunately it does not work for .docx. It works just fine for .html though. Thanks! – Rapids

By the way did you know that you can click "knit doc" in RStudio if you add some lines to .Rmd file ? rmarkdown.rstudio.com/word_document_format.html – Graeme

Answer 1

It's most likely that since this question was asked, the software has improved. I came to this question looking for how to increase the resolution of plots. I found OP's original approach worked out-of-the-box for me.

So, setting dpi=300 (because dpi=150 did not produce a sufficiently obvious difference) in the chunk's parameters, produced a much higher quality image without modifying the physical size of the images within Word.

```{r, echo=FALSE, dpi=300, fig.width=7, fig.height=7}
plot(0,0,type="n",xlim=c(0,500), ylim=c(-12,0), las=1)
color  <-  rainbow(500)
text(380,-1,"Test",pos=4)
lseq   <-  seq(-6,-2,length.out=500)
for(j in seq_along(lseq)) {
    lines(c(400,450), rep(lseq[j], 2), col=color[j])
}
polygon(c(400,450,450,400), c(-6,-6,-2,-2), lwd=1.2)
```

However, setting out.width and out.height removes the production of the image entirely, with the warning "fig.align, out.width, out.height, out.extra are not supported for Word output".

Grane

Answer 2

Just keep things simple, set all chucks to dpi of 300 and make them wider.

Run this first thing:

```{r setup, include=FALSE}
knitr::opts_chunk$set(dpi=300,fig.width=7)
```

Luane

Nailed it, definitely the right attitude. – Ardeen

Answer 3

This is a great time to take advantage of knitr's built-in dynamic customization features for output types. Ths was tested with both output targets...

````{r img-setup, include=FALSE, cache=FALSE}
out.format <- knitr::opts_knit$get("out.format")
img_template <- switch( out.format,
                     word = list("img-params"=list(fig.width=6,
                                                   fig.height=6,
                                                   dpi=150)),
                     {
                       # default
                       list("img-params"=list( dpi=150,
                                               fig.width=6,
                                               fig.height=6,
                                               out.width="504px",
                                               out.height="504px"))
                     } )

knitr::opts_template$set( img_template )
````

If you don't want to use the img_template for every image produced you can either not call the set function and instead add opts.label="img_template" to the params of the chunks you want to use it with, or override the img_template by specifying the params explicitly for the chunk.

Lase