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ffmpeg v4.0.2 or higher can encode/transcode VP9 in mp4.
Commandline (when transcoding): ffmpeg -i INPUT.MKV -c:v vp9libvpx-vp9 OUTPUT.MP4
Commandline (when remuxing (Super fast)): ffmpeg -i INPUT.MKV -c:v copy OUTPUT.MP4
Commandline (when transcoding): ffmpeg -i INPUT.MKV -c:v vp9 OUTPUT.MP4
Commandline (when transcoding): ffmpeg -i INPUT.MKV -c:v libvpx-vp9 OUTPUT.MP4
Commandline (when encodingtranscoding): ffmpeg -i INPUT.MKV -c:v vp9 OUTPUT.MP4
Commandline (when transcodingremuxing (Super fast)): ffmpeg -i INPUT.MKV -c:v copy OUTPUT.MP4
Commandline (when encoding): ffmpeg -i INPUT.MKV -c:v vp9 OUTPUT.MP4
Commandline (when transcoding (Super fast)): ffmpeg -i INPUT.MKV -c:v copy OUTPUT.MP4
