Rstudio rmarkdown: both portrait and landscape layout in a single PDF

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So, pandoc does not parse the content of latex environments, but you can fool it by redefining the commands in your header.tex file:

\usepackage{lscape}
\newcommand{\blandscape}{\begin{landscape}}
\newcommand{\elandscape}{\end{landscape}}

Thus, here \begin{landscape} is redefined to \blandscape, and \end{landscape} to \elandscape. Using those newly defined command in the .Rmd file seems to work:

---
title: "Mixing portrait and landscape"
output:
    pdf_document:
        includes:
            in_header: header.tex 
---

Portrait
```{r}
summary(cars)
```

\newpage
\blandscape
Landscape
```{r}
summary(cars)
```
\elandscape

\newpage
More portrait
```{r}
summary(cars)
```

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