This video shows how to inject additional nodes into exported NUKE scripts and transcoded timelines, on a per shot/track/sequence basis.

Create the Nodes you wish to add in NUKE, copy them, and paste them into the Additional Nodes dialog. You can optionally filter these by tag.

(Footage shown is courtesy of fxphd from the NUK305 NUKE Masterclass, by Russell Dodgson)

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