actually typically:
-the encoder does his own filter and gives clips of the part that need afx to the afx-person
-then that person either makes an overlay or a fully rendered clip(depending on the situation
-then the encoder merges in the rendered overlays/clips using avisynth
-finally in his avisynth script, the encoder adds the ass/ssa
You can of course do full renders but the colorspace conversions and time loss are too big.
Note: if you dont know how to render at all... then maybe you should try learning some afx before
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