qvirus 0.0.6

New features

Data and Quantum Encoding

Added curated datasets that support reproducible workflows for quantum state preparation and Hamiltonian construction in immunometabolic modeling: - data_enc: biomarker panel for 3-qubit angle encoding. - data_corr: biomarker pool for Hamiltonian correlation structure.

qvirus 0.0.5

New features

Quantum Key Distribution (QKD) Protocols

• Added full simulation of the BB84 protocol through run_bb84_simulation().
  This function models the quantum key distribution process between Alice and Bob,
  computing the Quantum Bit Error Rate (QBER) under both perfect (secure) and
  eavesdropped (compromised) channels.
• Added simulation of the E91 (Ekert 1991) entanglement-based protocol via
  run_e91_simulation().
  This implementation uses Bell’s inequality (CHSH statistic) to determine
  whether the communication channel exhibits quantum behavior (|S| > 2) or
  classical (insecure) behavior (|S| ≤ 2).

Interaction and Payoffs Framework

• Improved integration between Interaction and InteractionClassification objects.
• Enhanced the payoff computation workflow, introducing mse.payoffs() for
  evaluating mean squared errors between observed and predicted payoffs.
• Updated internal accessors to reduce direct exposure of object internals, ensuring
  cleaner S3 method dispatch and reproducibility.

Documentation and Testing

• Expanded documentation with detailed Roxygen examples and theoretical references
  for both BB84 and E91 protocols.
• Added reproducible test cases and numerical rounding stability in snapshot tests.
• Improved code consistency and formatting to support reproducible builds on CRAN.

qvirus 0.0.4

New features

Interaction

• Added new functionalities to the Interaction class, enhancing its capabilities for modeling quantum simulations.

InteractionClassification

• Added new functionalities to the InteractionClassification class.

Quantum game of phenotypes

• Added new fubnctionalities to design and simulate quantum games of HIV phenotypes