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Almost all of them have a layer on top of ffmpeg. If you're good on the CLI, ffmpeg might be an option. If you have a lot of time too I guess. You can extract frames to images and manipulate them however, and join frames back to video. Making green screen stuff possible for more than a decade (or two) now from a certain POV. With netpbm tools like ppmchange and whatnot.
I've used sox and audacity to manipulate audio, aka speed it up / slow it down. Although mine was for video sync on long hour+ recordings, where external audio could be a second or more longer than the video version of audio. An issue when dealing with long clips and music. To have the orchestra with horns down while music is still going, is an obvious oversight.
Otherwise kdenlive is a common mention. There's openshot, lives, cinelerra, a few commercial offerings as well. And probably half a dozen I missed. blender (a 3D app), I think even rosegarden(a midi app) was starting to implement video stuff. You don't have to look far, and searches will likely turn up many results. With KDEnLive and OpenShot being two of the more mature open/free options.
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