Radial Interaction Tomography: Recognizing Non-Transitive Evolutionary Games from One Range-Expansion Image

Colored sectors in a microbial range expansion encode more than lineage survival counts. We formulate a computer-vision inverse problem: from one endpoint image of an accretive multi-type expansion, recover the radius-indexed pairwise boundary-flow field and test whether the visual pattern is compatible with a transitive scalar fitness hierarchy. The observable is a geometric signal extracted from sector-boundary curves in log-polar coordinates. We prove endpoint observability and stability for frozen fronts, weighted transitive/cyclic decomposition, contact-complete circular design, physical-clock and mechanism non-identifiability, exact Gaussian cyclicity testing, and Bonferroni-valid interval scanning. The benchmark is deterministic: analytic endpoint images, blurred/noisy pixel round trips, scalar-null stress tests, public-image tracing, multi-resolution mechanistic endpoints, and a non-learning frozen-front simulator. The implementation recovers pairwise edge-flow histories from endpoint images, detects cyclic residuals in a mechanistic four-type expansion, and uses those residuals as forcing signals for a dimensionless active design-control layer covering reaction-diffusion control, phenotype-frontier optimization, protocol synthesis, Monte Carlo robustness, and a downstream population-state bridge.
Ancillary-file links:
Ancillary files (details):
- README.md
- RUN_LOG.md
- code/mechanistic/active_design_control.cu
- code/mechanistic/active_design_monte_carlo.cu
- code/mechanistic/active_tomography_mechanism.cu
- code/mechanistic/active_tomography_modules.cu
- code/mechanistic/cuda_front_batch.cu
- code/mechanistic/cuda_front_game.cu
- code/mechanistic/module2_polar_rd3d.cu
- code/pyproject.toml
- code/scripts/acquire_external_datasets.py
- code/scripts/analyze_active_design_control.py
- code/scripts/analyze_active_design_monte_carlo.py
- code/scripts/analyze_active_tomography_pipeline.py
- code/scripts/analyze_adjoint_hmc_active_design.py
- code/scripts/analyze_cycle_sweep.py
- code/scripts/analyze_mechanistic_cuda_front.py
- code/scripts/analyze_resolution_sweep.py
- code/scripts/audit_external_datasets.py
- code/scripts/audit_five_module_goal.py
- code/scripts/audit_six_module_goal.py
- code/scripts/finalize_module2.py
- code/scripts/run_active_tomography_pipeline.py
- code/scripts/run_adjoint_hmc_active_design.py
- code/scripts/run_agar_dinov2_probe.py
- code/scripts/run_analytic_benchmark.py
- code/scripts/run_game_tomography_benchmark.py
- code/scripts/run_module1_tensor_field.py
- code/scripts/run_module4_deep_bsde.py
- code/scripts/run_module4_sam_copypaste_fallback.py
- code/scripts/run_module5_community_fba.py
- code/scripts/run_module5_gpu_achr.py
- code/scripts/run_module5_parafac_hac.py
- code/scripts/run_module6_cv_bridge.py
- code/scripts/run_nestor_hgt_probe.py
- code/scripts/run_pixel_roundtrip_benchmark.py
- code/scripts/run_public_image_trace_audit.py
- code/scripts/run_remote_active_design_control.sh
- code/scripts/run_remote_active_design_monte_carlo.sh
- code/scripts/run_remote_adjoint_hmc_active_design.sh
- code/scripts/run_remote_cuda_batch.sh
- code/scripts/run_remote_cuda_front.sh
- code/scripts/run_remote_cycle_sweep.sh
- code/scripts/run_remote_resolution_sweep.sh
- code/scripts/run_scalar_null_phase_diagram.py
- code/scripts/run_stochastic_resolution_benchmark.py
- code/scripts/summarize_carveme_model.py
- code/scripts/validate_module3_assays.py
- code/scripts/validate_module4_replicates.py
- code/scripts/validate_module5_inputs.py
- code/src/radial_inverse/__init__.py
- code/src/radial_inverse/core.py
- code/src/radial_inverse/design.py
- code/src/radial_inverse/stochastic.py
- code/src/radial_inverse/synthetic.py
- code/src/radial_inverse/vision.py
- code/tests/test_core.py
- data/plos_many_allele/MANIFEST.md
- data/plos_many_allele/figure_1.png
- docs/arxiv_and_gpu_workflow.md
- docs/external_dataset_sources.md
- docs/lab_handoff_active_design_scope.md
- docs/literature_ledger.md
- docs/local_antagonism_governance.md
- docs/module3_assay_data_contract.md
- docs/module4_preregistration.md
- docs/module5_mechanism_data_contract.md
- docs/research_direction.md
- docs/theorem_notes.md
- manifests/MANIFEST.md
- results/dataset_intake/acquisition_checks.csv
- results/dataset_intake/acquisition_manifest.json
- results/dataset_intake/agar_demo_images.csv
- results/dataset_intake/audit_stdout.json
- results/dataset_intake/external_dataset_audit.json
- results/dataset_intake/external_dataset_checks.csv
- results/final_audit/five_module_audit.csv
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- results/final_audit/six_module_audit.csv
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- results/mechanistic/active_tomography_pipeline/active_design/active_design_metrics.json
- results/mechanistic/active_tomography_pipeline/active_design/active_design_trace.csv
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- results/mechanistic/active_tomography_pipeline/nsga2/nsga2_final_front.csv
- results/mechanistic/active_tomography_pipeline/nsga2/nsga2_metrics.json
- results/mechanistic/active_tomography_pipeline/nsga2/nsga2_trace.csv
- results/mechanistic/active_tomography_pipeline/pipeline_log.jsonl
- results/mechanistic/active_tomography_pipeline/pipeline_summary.json
- results/mechanistic/active_tomography_pipeline/protocol_synthesis/protocol_replicates.csv
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- results/module2/remote_git_log.txt
- results/module3/intake_audit.csv
- results/module3/intake_audit.json
- results/module3_phenotype_vision/dinov2_demo/confusion_matrix.csv
- results/module3_phenotype_vision/dinov2_demo/dinov2_demo_metrics.json
- results/module3_phenotype_vision/dinov2_demo/gpu_dmon.txt
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- results/module3_phenotype_vision/dinov2_demo/plate_split.csv
- results/module3_phenotype_vision/dinov2_demo/training_trace.csv
- results/module3_phenotype_vision/dinov2_demo/validation_embeddings.csv
- results/module3_phenotype_vision/dinov2_demo/validation_predictions.csv
- results/module4/computational/deep_bsde_metrics.json
- results/module4/computational/gpu_dmon.txt
- results/module4/computational/protocol_2h.csv
- results/module4/computational/terminal_samples.csv
- results/module4/computational/training_trace.csv
- results/module4/sam_copypaste/class_balance.csv
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- results/module4/sam_copypaste/sam_copypaste_metrics.json
- results/module4/sam_copypaste/synthetic_replicates.csv
- results/module4/sam_copypaste/synthetic_tiles/agar_cp_000.png
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- results/reports/active_design_adjoint_hmc_report.md
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- results/reports/active_tomography_pipeline_report.md
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