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Question: no floating figures with biocstyle
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gravatar for Lescai, Francesco
12 days ago by
Denmark
Lescai, Francesco370 wrote:

Hi guys,

I've searched for this without success and maybe there's a banal solution :) how do I keep in place a figure when I'm using BiocStyle to output a PDF? seems the default is floating, but couldn't find a way to change it.

Sometimes I find it useful to have the figure right before or after the text referring to it, without having the reader go some pages ahead to find it.

cheers, 

Francesco

ADD COMMENTlink modified 12 days ago by Andrzej Oleś670 • written 12 days ago by Lescai, Francesco370

Is your source a .Rnw or a .Rmd file?

ADD REPLYlink modified 12 days ago • written 12 days ago by Andrzej Oleś670

.Rmd with RStudio, using knitR

ADD REPLYlink modified 12 days ago • written 12 days ago by Lescai, Francesco370
0
gravatar for Andrzej Oleś
12 days ago by
Andrzej Oleś670
EMBL Heidelberg, Germany
Andrzej Oleś670 wrote:

There is a knitr code chunk option fig.pos meant for the purpose of controlling the placement of floats. When it is set to 'H' it will freeze the figure by unfloating it. Note the uppercase which is important because this is a special placement specifier which also requires the LaTeX package float to be loaded.

However, as pointed out by Yihui, in order to get fig.pos to work in R Markdown you will additionally need to specify one of the options: fig.align, out.width or out.extra. I've updated BiocStyle 2.5.41 to do it automatically by setting out.extra = '' when fig.pos is specified.

The following MWE translates the above into code.

example.Rmd

---
output: 
  BiocStyle::pdf_document:
    includes:
      in_header: header.tex
---

```{r, fig.cap='Old Faithful Geyser Data', fig.pos='H'}
plot(faithful)
```

header.tex

\usepackage{float}
ADD COMMENTlink written 12 days ago by Andrzej Oleś670
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