TipTuts shows How to Get Around MP4’s Frame Size Limit by Using Its Successor in Media Encoder MP4 and H.264 are great for getting video file sizes down while still keeping some of the quality.
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Barring using the BG Renderer Script from AEscripts, After Effects renders take over the application, making you wait util the rendering is finished before you can continue to work. Here, Glen Faught from Digital Sandwich shows that you are actually able to use the Adobe Media Encoder application as a rendering engine.
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