README.md
__init__.py
_lazy.py
_lazy_20260731_031636_983.py
_registry.py
_subprocess_fix.py
api_base.py
cli.py
config.py
dep_check.py
depgraph.py
dormant_sync.py
dormant_wake.py
lazy_load.py
module_registry.py
protocol.py
pyproject.toml
setup.py
test_generator.py
yaml.py
./__init__.py
./_lazy.py
./_lazy_20260731_031636_983.py
./_registry.py
./_subprocess_fix.py
./api_base.py
./cli.py
./config.py
./dep_check.py
./depgraph.py
./dormant_sync.py
./dormant_wake.py
./lazy_load.py
./module_registry.py
./protocol.py
./setup.py
./test_generator.py
./yaml.py
config/__init__.py
core/__init__.py
core/api_server.py
core/async_pipeline.py
core/audit.py
core/config.py
core/cross_layer_pipeline.py
core/exceptions.py
core/html_reporter.py
core/interactive_assistant.py
core/interactive_charts.py
core/latex_export.py
core/logging_config.py
core/multisession.py
core/orc.py
core/pipeline.py
core/planner.py
core/protocol.py
core/reporter.py
core/search_engine.py
core/session_core.py
core/shared_types.py
core/step_handlers.py
core/templates.py
core/tracking.py
core/user_formatters.py
core/pipeline/__init__.py
core/pipeline/orchestrator.py
core/pipeline/report.py
core/pipeline/stages.py
domain/__init__.py
domain/economic_geography/__init__.py
domain/economic_geography/analysis_toolkit.py
domain/economic_geography/chart_engine.py
domain/economic_geography/data_api.py
domain/economic_geography/data_pipeline.py
domain/economic_geography/data_validator.py
domain/economic_geography/literature_engine.py
domain/economic_geography/literature_review.py
domain/economic_geography/protocol_adapters.py
domain/economic_geography/raster_loader.py
domain/economic_geography/spatial_loader.py
domain/economic_geography/workbench.py
experimental/__init__.py
experimental/ecosystem/__init__.py
experimental/ecosystem/causal_evidence_api.py
experimental/ecosystem/collaborative_lab.py
experimental/ecosystem/grant_generator.py
experimental/ecosystem/research_compiler.py
experimental/ecosystem/research_marketplace.py
experimental/ecosystem/self_replicating.py
experimental/evolution/__init__.py
experimental/evolution/causal_world_model.py
experimental/evolution/evolution_simulator.py
experimental/evolution/feedback.py
experimental/evolution/framework_sentience.py
experimental/evolution/recursive_meta_learner.py
experimental/evolution/research_singularity.py
experimental/evolution/zero_shot_discovery.py
experimental/fusion/__init__.py
experimental/fusion/__init___20260729_094701_201.py
experimental/fusion/bridges.py
experimental/fusion/counterfactual_simulator.py
experimental/fusion/discovery_engine.py
experimental/fusion/knowledge_transfer.py
experimental/fusion/observability.py
experimental/fusion/provenance_blockchain.py
experimental/fusion/realtime_evidence.py
experimental/fusion/research_os.py
experimental/transcend/__init__.py
experimental/transcend/counterfactual_engine.py
experimental/transcend/epistemic_auditor.py
experimental/transcend/meta_research_auditor.py
experimental/transcend/narrative_science.py
experimental/transcend/research_genealogy.py
experimental/transcend/study_design_optimizer.py
experimental/transcend/synthesis.py
experimental/transcendence/__init__.py
experimental/transcendence/adversarial_twin.py
experimental/transcendence/adversarial_verification.py
experimental/transcendence/distill_experiment.py
experimental/transcendence/framework_bootstrap.py
experimental/transcendence/research_consciousness.py
experimental/transcendence/research_market_protocol.py
experimental/transcendence/self_writing.py
experimental/transcendence/temporal_continuum.py
experimental/transcendence/unified_theory.py
intelligence/__init__.py
intelligence/meta_compiler.py
metacognition/__init__.py
metacognition/bridge_mapper.py
metacognition/cross_layer_orchestrator.py
metacognition/ethics_guardian.py
metacognition/explainable_auditor.py
metacognition/impact_forecaster.py
metacognition/paradigm_synthesizer.py
metacognition/quality_gate.py
metacognition/self_correcting.py
metacognition/triangulation.py
metacognition/unified_config.py
methods/__init__.py
methods/analyzer.py
methods/causal.py
methods/collector.py
methods/data_adapter.py
methods/data_quality.py
methods/forecasting.py
methods/method_recommender.py
methods/methodology_bank.py
methods/model_diagnostics.py
methods/panel.py
methods/parallel_executor.py
methods/robustness.py
methods/spatial.py
methods/spatial_did.py
methods/stream_source.py
reporting/__init__.py
reporting/docx_writer.py
reporting/review_response.py
reporting/template_adapter.py
reporting/writer.py
reproducibility/__init__.py
reproducibility/locker.py
research_assistant_xf.egg-info/PKG-INFO
research_assistant_xf.egg-info/SOURCES.txt
research_assistant_xf.egg-info/dependency_links.txt
research_assistant_xf.egg-info/requires.txt
research_assistant_xf.egg-info/top_level.txt
shared_utils/__init__.py
shared_utils/auto_purify.py
shared_utils/marker_guard.py
shared_utils/matplotlib_guard.py
shared_utils/output_sanitizer.py
shared_utils/pytest_marker_plugin.py
tests/__init__.py
tests/conftest.py
tests/test_advanced_methods.py
tests/test_config.py
tests/test_core.py
tests/test_docx_writer.py
tests/test_dormant_wake.py
tests/test_e2e_pipeline.py
tests/test_economic_geography.py
tests/test_literature_review.py
tests/test_methods.py
tests/test_pipeline_protocol.py
tests/test_protocol.py
tests/test_reporting.py
tests/test_subsystems.py
tests/test_triangulation.py
tests/test_wake_pipeline_integration.py
tools/__init__.py
tools/config_doctor.py