I would like to understand if some words are omitted in sentences of sense verbs.
Like, "I see you" is derived from "I see you my eyes" or "I see my eyes at you"
Because I think that "you" is an indirect object.
"I see you" is not derived from those sentences (which incidentally are ungrammatical).
'You' is a direct object.
I don't think anything is omitted in sentences with sense verbs. The definition of 'see' (in this example) is to detect something with your eyes. That means that the word 'see' includes the whole business of the eyes, the optical tracts to the occipital cortex, etc.