How does Neo bring Trinity back to life?
He’s the One! Neo’s expanded capabilities in the Matrix not only allow him to see it differently than anyone else, it also allows him to manipulate it on a greater level than anyone who’s come before. In this case, Trinity is plugged in to the matrix. Therefore her brain is part of and accessible to the Matrix. Neo actually went into and joined her mind instructing her brain to pump her heart bringing her back to life. Remember she was not really mortally wounded. Her brain only thought she was and Neo instructed it otherwise. This was visualized by watching Neo cup his hand around Trinity’s heart and gently squeeze it.