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Initially thought to be the therapist to Neo following the events of the Matrix trilogy prior to Resurrections, he is later revealed to be a manipulative program who rose to power in the Machines after their deal with Neo as well as Agent Smith being purged. He governs a new Matrix established in place of the previous one, and is responsible for keeping both Neo and Trinity alive in order to use their thoughts to sustain his new Matrix.
It is unknown when the Analyst was created, but after Neo made a deal with the Machines and purged Agent Smith from the Matrix, a civil war ensued between the Machines over what to do with the Matrix, with some Machines even defecting to join the human resistance. The Analyst eventually rose to power and replaced the Architect as the administrator of the Matrix. The Analyst created a new version of the Matrix set in the 21st century and resurrected both Neo and Trinity in order to use their thoughts to keep it running. The Analyst discovered that on their own, neither of them were special but that together they achieved a balance that enabled his simulation to run flawlessly. The Analyst thus gave both of them identities in the Matrix, placing Neo as the head programmer of a gaming company while inserting Agent Smith in as the head of the company, and making Trinity "Tiffany", a mother of three. To keep watch over Neo, the Analyst gave himself a role as Neo's therapist, prescribing him blue pills to keep him docile.
However, a group of resistance fighters, working with an AI program Neo had created based on his memories of Morpheus, were able to infiltrate the simulation and give Neo a red pill, allowing him to escape. Despite this, the Analyst was confident Neo would return as he still had Trinity. Neo would later return to the simulation to make a deal with the Analyst, offering to return to the Matrix if Trinity chose so. Trinity then arrived and initially chose to stay in the simulation, due to her kids, but after realizing they were only bots created to manipulate her into staying changed her mind and helped Neo fight off the SWAT bots the Analyst had spawned around him. After escaping, Neo and Trinity went to confront the Analyst in his villa in the Matrix. As they were now the rulers of the Matrix, they warned the Analyst not to try to take control again before leaving to reform it.
Trivia
The Analyst is the first not to be agent or to have a name.
In recent years, The Matrix has been looked back as an allegory to gender transition in a transgender analysis approved by the Wachowskis, who came out in the 2010s as transgender women. If these themes carry over into The Matrix Resurrections, The Analyst may represent a conversion therapist (a therapist who tries to force an LGBT individual to change their sexual orientation or gender identity) due to him forcing Neo and Trinity into lives they don't truly want (Neo being a single video game developer and Trinity a married woman with kids), which can be interpreted into pressuring them into heteronormativity to take the roles society expects of them.
The Analyst is the first main antagonist of The Matrix film series not to be killed.
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