LICENSE.md
README.md
pyproject.toml
setup.py
spatialprofilingtoolbox/__init__.py
spatialprofilingtoolbox/requirements.txt
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/front_proximity_viz/__init__.py
spatialprofilingtoolbox/applications/front_proximity_viz/front_proximity_viz.py
spatialprofilingtoolbox/data_model/__init__.py
spatialprofilingtoolbox/data_model/create_views.sql
spatialprofilingtoolbox/data_model/drop_views.sql
spatialprofilingtoolbox/data_model/fields.tsv
spatialprofilingtoolbox/data_model/grant_on_tables.sql
spatialprofilingtoolbox/data_model/pathology_schema.sql
spatialprofilingtoolbox/data_model/performance_tweaks.sql
spatialprofilingtoolbox/data_model/refresh_views.sql
spatialprofilingtoolbox/dataset_designs/__init__.py
spatialprofilingtoolbox/dataset_designs/multiplexed_imaging/__init__.py
spatialprofilingtoolbox/dataset_designs/multiplexed_imaging/halo_cell_metadata_design.py
spatialprofilingtoolbox/environment/__init__.py
spatialprofilingtoolbox/environment/configuration_settings.py
spatialprofilingtoolbox/environment/database_connection.py
spatialprofilingtoolbox/environment/database_context_utility.py
spatialprofilingtoolbox/environment/dichotomization.py
spatialprofilingtoolbox/environment/export_features.py
spatialprofilingtoolbox/environment/extract_compartments.py
spatialprofilingtoolbox/environment/file_io.py
spatialprofilingtoolbox/environment/verbose_sql_execution.py
spatialprofilingtoolbox/environment/logging/__init__.py
spatialprofilingtoolbox/environment/logging/log_formats.py
spatialprofilingtoolbox/environment/logging/performance_timer.py
spatialprofilingtoolbox/environment/logging/run_configuration_reporter.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/parser.py
spatialprofilingtoolbox/environment/source_file_parsers/samples.py
spatialprofilingtoolbox/environment/source_file_parsers/skimmer.py
spatialprofilingtoolbox/environment/source_file_parsers/subjects.py
spatialprofilingtoolbox/scripts/spt-aggregate-core-results
spatialprofilingtoolbox/scripts/spt-configure
spatialprofilingtoolbox/scripts/spt-core-job
spatialprofilingtoolbox/scripts/spt-create-db-schema
spatialprofilingtoolbox/scripts/spt-db-constraints
spatialprofilingtoolbox/scripts/spt-extract-compartments
spatialprofilingtoolbox/scripts/spt-front-proximity-viz
spatialprofilingtoolbox/scripts/spt-generate-aws-task-definition
spatialprofilingtoolbox/scripts/spt-generate-run-information
spatialprofilingtoolbox/scripts/spt-guess-channels
spatialprofilingtoolbox/scripts/spt-initialize
spatialprofilingtoolbox/scripts/spt-merge-performance-reports
spatialprofilingtoolbox/scripts/spt-merge-sqlite-dbs
spatialprofilingtoolbox/scripts/spt-print
spatialprofilingtoolbox/scripts/spt-query-for-file
spatialprofilingtoolbox/scripts/spt-report-on-logs
spatialprofilingtoolbox/scripts/spt-report-run-configuration
spatialprofilingtoolbox/templates/.spt_db.config.template
spatialprofilingtoolbox/templates/__init__.py
spatialprofilingtoolbox/templates/log_table.html.jinja
spatialprofilingtoolbox/templates/log_table.tex.jinja
spatialprofilingtoolbox/templates/nextflow.config.jinja
spatialprofilingtoolbox/workflows/__init__.py
spatialprofilingtoolbox/workflows/main.nf.jinja
spatialprofilingtoolbox/workflows/defaults/__init__.py
spatialprofilingtoolbox/workflows/defaults/computational_design.py
spatialprofilingtoolbox/workflows/defaults/core.py
spatialprofilingtoolbox/workflows/defaults/initializer.py
spatialprofilingtoolbox/workflows/defaults/integrator.py
spatialprofilingtoolbox/workflows/defaults/job_generator.py
spatialprofilingtoolbox/workflows/defaults/workflow_module_exporting.py
spatialprofilingtoolbox/workflows/density/__init__.py
spatialprofilingtoolbox/workflows/density/computational_design.py
spatialprofilingtoolbox/workflows/density/core.py
spatialprofilingtoolbox/workflows/density/data_logging.py
spatialprofilingtoolbox/workflows/density/initializer.py
spatialprofilingtoolbox/workflows/density/integrator.py
spatialprofilingtoolbox/workflows/front_proximity/__init__.py
spatialprofilingtoolbox/workflows/front_proximity/computational_design.py
spatialprofilingtoolbox/workflows/front_proximity/core.py
spatialprofilingtoolbox/workflows/front_proximity/initializer.py
spatialprofilingtoolbox/workflows/front_proximity/integrator.py
spatialprofilingtoolbox/workflows/halo_import/__init__.py
spatialprofilingtoolbox/workflows/halo_import/computational_design.py
spatialprofilingtoolbox/workflows/halo_import/core.py
spatialprofilingtoolbox/workflows/halo_import/initializer.py
spatialprofilingtoolbox/workflows/halo_import/integrator.py
spatialprofilingtoolbox/workflows/nearest_distance/__init__.py
spatialprofilingtoolbox/workflows/nearest_distance/computational_design.py
spatialprofilingtoolbox/workflows/nearest_distance/core.py
spatialprofilingtoolbox/workflows/nearest_distance/initializer.py
spatialprofilingtoolbox/workflows/nearest_distance/integrator.py
spatialprofilingtoolbox/workflows/phenotype_proximity/__init__.py
spatialprofilingtoolbox/workflows/phenotype_proximity/computational_design.py
spatialprofilingtoolbox/workflows/phenotype_proximity/core.py
spatialprofilingtoolbox/workflows/phenotype_proximity/initializer.py
spatialprofilingtoolbox/workflows/phenotype_proximity/integrator.py