Modular architecture refactoring and feedback cell adjustments

[Joao-Paulo-Silva]

This PR enhances the project’s modular architecture and updates the algorithms’ outputs to operate with cell populations.
The refactoring reorganizes internal modules to improve separation of concerns and cohesion, while also introducing compatibility with NumPy operations in the entities of the immune submodule.

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Changes:

• Internal module restructuring for greater clarity and better separation of responsibilities.
• Implementation and adjustments of the Cell, Antibody, and Detector classes in a dedicated (immune) module.
• Removal of redundant and duplicate code.

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Motivation:

Although the previous structure was already modular, there was overlap of responsibilities, unclear imports, and redundancies that made code maintenance and evolution difficult.

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Refactoring:

• Facilitate the discovery and extension of functionalities.
• Ensure that immune system entities (cells, antibodies, and detectors) exhibit robust, consistent behavior and are compatible with NumPy vectorized operations.