Emergent Duplex Helicity from Coherence Alignment and Transport

This paper presents a minimal Coherence Geometry (CG) transport model in which duplex helicity emerges from local coherence alignment rather than from an explicitly imposed helical scaffold, prescribed twist angle, target curve, or global construction rule. The model uses a three-channel coherence state together with a fixed 3 x 3 coherence operator. Local admissible states align with the coherence mode supported by the operator. A transport component is extracted by projecting the response onto an axis determined by the antisymmetric part of the operator, and the resulting transport increment is recursively applied as a local frame rotation during duplex growth. The construction produces stable duplex helicity as a derived outcome of local coherence alignment and recursive transport. Diagnostic examples show complete transport cycles, persistent long-range helical organization, and operator-controlled handedness. Numerical experiments further indicate that a broad range of admissible initial states converge toward nearly identical response direction, suggesting that the resulting transport behavior is determined primarily by the operator rather than by the particular incoming state. This document should be read as a minimal CG transport construction for biological molecular geometry. It is not intended as a realistic biochemical simulation of DNA, nucleotide chemistry, base pairing, hydration, molecular mechanics, or all-atom structural biology. Its purpose is to show how a helical duplex-like form can arise from local coherence alignment and transport without prescribing a global helix in advance. The Zenodo record includes three Jupyter notebooks. Two notebooks generate the DNA duplex video frames and visualizations used for the website and paper imagery, including both early-growth and longer-strand structures. A third notebook generates the diagnostic figures shown in the paper, including plots for recursive duplex growth, transport behavior, response observables, operator-controlled handedness, and convergence behavior. These notebooks are provided as research artifacts rather than maintained software. Internal reference: CGI-RSR-000028.