LICENSE.md
README.md
pyproject.toml
setup.py
spatialprofilingtoolbox/__init__.py
spatialprofilingtoolbox/fields.tsv
spatialprofilingtoolbox/log_table.html.jinja
spatialprofilingtoolbox/log_table.tex.jinja
spatialprofilingtoolbox/nextflow.config.local
spatialprofilingtoolbox/nextflow.config.lsf
spatialprofilingtoolbox/pathology_schema.sql
spatialprofilingtoolbox/requirements.txt
spatialprofilingtoolbox/spt_pipeline.nf
spatialprofilingtoolbox/version.txt
spatialprofilingtoolbox.egg-info/PKG-INFO
spatialprofilingtoolbox.egg-info/SOURCES.txt
spatialprofilingtoolbox.egg-info/dependency_links.txt
spatialprofilingtoolbox.egg-info/requires.txt
spatialprofilingtoolbox.egg-info/top_level.txt
spatialprofilingtoolbox/applications/__init__.py
spatialprofilingtoolbox/applications/cell_cartoons/__init__.py
spatialprofilingtoolbox/applications/cell_cartoons/application.py
spatialprofilingtoolbox/applications/configuration_ui/__init__.py
spatialprofilingtoolbox/applications/configuration_ui/ui.py
spatialprofilingtoolbox/applications/diffusion_graphs_viz/__init__.py
spatialprofilingtoolbox/applications/diffusion_graphs_viz/diffusion_graphs_viz.py
spatialprofilingtoolbox/applications/diffusion_tests_viz/__init__.py
spatialprofilingtoolbox/applications/diffusion_tests_viz/diffusion_tests_viz.py
spatialprofilingtoolbox/applications/front_proximity_viz/__init__.py
spatialprofilingtoolbox/applications/front_proximity_viz/front_proximity_viz.py
spatialprofilingtoolbox/dataset_designs/__init__.py
spatialprofilingtoolbox/dataset_designs/multiplexed_imaging/__init__.py
spatialprofilingtoolbox/dataset_designs/multiplexed_imaging/halo_cell_metadata_design.py
spatialprofilingtoolbox/dataset_designs/multiplexed_imaging/halo_cell_metadata_provider.py
spatialprofilingtoolbox/environment/__init__.py
spatialprofilingtoolbox/environment/calculator.py
spatialprofilingtoolbox/environment/cell_metadata.py
spatialprofilingtoolbox/environment/computational_design.py
spatialprofilingtoolbox/environment/configuration.py
spatialprofilingtoolbox/environment/configuration_settings.py
spatialprofilingtoolbox/environment/database_context_utility.py
spatialprofilingtoolbox/environment/dichotomization.py
spatialprofilingtoolbox/environment/extract_compartments.py
spatialprofilingtoolbox/environment/file_io.py
spatialprofilingtoolbox/environment/job_generator.py
spatialprofilingtoolbox/environment/log_formats.py
spatialprofilingtoolbox/environment/performance_timer.py
spatialprofilingtoolbox/environment/settings_wrappers.py
spatialprofilingtoolbox/environment/single_job_analyzer.py
spatialprofilingtoolbox/environment/skimmer.py
spatialprofilingtoolbox/environment/workflow_modules.py
spatialprofilingtoolbox/environment/source_file_parsers/__init__.py
spatialprofilingtoolbox/environment/source_file_parsers/cellmanifests.py
spatialprofilingtoolbox/environment/source_file_parsers/cellmanifestset.py
spatialprofilingtoolbox/environment/source_file_parsers/channels.py
spatialprofilingtoolbox/environment/source_file_parsers/outcomes.py
spatialprofilingtoolbox/environment/source_file_parsers/parser.py
spatialprofilingtoolbox/scripts/spt-aggregate-cell-data
spatialprofilingtoolbox/scripts/spt-diffusion-graphs-viz
spatialprofilingtoolbox/scripts/spt-diffusion-viz
spatialprofilingtoolbox/scripts/spt-front-proximity-viz
spatialprofilingtoolbox/scripts/spt-merge-sqlite-dbs
spatialprofilingtoolbox/scripts/spt-pipeline
spatialprofilingtoolbox/scripts/spt-print
spatialprofilingtoolbox/scripts/spt-report-on-logs
spatialprofilingtoolbox/scripts/spt-strip-work-to-logs
spatialprofilingtoolbox/workflows/__init__.py
spatialprofilingtoolbox/workflows/density/__init__.py
spatialprofilingtoolbox/workflows/density/analyzer.py
spatialprofilingtoolbox/workflows/density/computational_design.py
spatialprofilingtoolbox/workflows/density/core.py
spatialprofilingtoolbox/workflows/density/data_logging.py
spatialprofilingtoolbox/workflows/density/integrator.py
spatialprofilingtoolbox/workflows/density/job_generator.py
spatialprofilingtoolbox/workflows/diffusion/__init__.py
spatialprofilingtoolbox/workflows/diffusion/analyzer.py
spatialprofilingtoolbox/workflows/diffusion/computational_design.py
spatialprofilingtoolbox/workflows/diffusion/core.py
spatialprofilingtoolbox/workflows/diffusion/integrator.py
spatialprofilingtoolbox/workflows/diffusion/job_generator.py
spatialprofilingtoolbox/workflows/front_proximity/__init__.py
spatialprofilingtoolbox/workflows/front_proximity/analyzer.py
spatialprofilingtoolbox/workflows/front_proximity/computational_design.py
spatialprofilingtoolbox/workflows/front_proximity/core.py
spatialprofilingtoolbox/workflows/front_proximity/integrator.py
spatialprofilingtoolbox/workflows/front_proximity/job_generator.py
spatialprofilingtoolbox/workflows/phenotype_proximity/__init__.py
spatialprofilingtoolbox/workflows/phenotype_proximity/analyzer.py
spatialprofilingtoolbox/workflows/phenotype_proximity/computational_design.py
spatialprofilingtoolbox/workflows/phenotype_proximity/core.py
spatialprofilingtoolbox/workflows/phenotype_proximity/integrator.py
spatialprofilingtoolbox/workflows/phenotype_proximity/job_generator.py