A GIF animation of the plots in a code chunk will be generated for HTML output when you use the chunk options fig.show = 'animate', ffmpeg.format = 'gif', and dev = 'jpeg'. Open the Output Settings window with Render Output Settings In the File Settings subsection, you should now see mp4, webm and gif. Right-click on ffmpeg and select Mark for Installation from the context menu. Navigate to the Import/Export category at the top you will see a box with the text FFmpeg path. You can make a GIF animation using knitr starting in version 1.15. Install ffmpeg: Open Synpatics and search for ffmpeg. If you are on a macOS, you can install FFmpeg through Homebrew using the formula brew install ffmpeg.
To create a GIF animation of a plot made in R, you need to install FFmpeg on your computer. Once you have your custom palette, you can then use it to generate your GIF: ffmpeg -i clip.mp4 -i -filtercomplex paletteuse,fps10.
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