Insert a logo in upper right corner of R markdown pdf document

You can use the includes option in the yaml to specify a custom addition to your latex header. The yaml part would look like

---
output: 
    pdf_document:
      keep_tex: true
      includes:
          in_header: header.tex
---

and you need to save a separate file called header.tex with the following defining your company logo like so:

\usepackage{fancyhdr}
\pagestyle{fancy}
\rhead{\includegraphics[width = .05\textwidth]{logo.png}}

Here I used the fancyhdr latex package to add the logo, but there are other potential solutions. See here for more options.

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