# API Reference


## Pipeline


Running a plate through the analysis pipeline.


[loops.plate_loop()](loops.plate_loop.md#omero_screen.loops.plate_loop)  
Main loop to process a plate.

[plate_dataset.PlateDataset](plate_dataset.PlateDataset.md#omero_screen.plate_dataset.PlateDataset)  
Manages the creation and retrieval of OMERO datasets associated with screening plates.


## Metadata


Plate layout, channel names and channel roles.


[metadata_parser.MetadataParser](metadata_parser.MetadataParser.md#omero_screen.metadata_parser.MetadataParser)  
Parses and manages channel and well metadata for an OMERO plate.

[metadata_parser.resolve_channel_roles()](metadata_parser.resolve_channel_roles.md#omero_screen.metadata_parser.resolve_channel_roles)  
Resolve channel role assignments (`nucleus` / `cell`) from channel names.


## Configuration


Environment files and logging setup.


[config.set_env_vars()](config.set_env_vars.md#omero_screen.config.set_env_vars)  
Loads environment variables from configuration files or the environment.

[config.configure_logging()](config.configure_logging.md#omero_screen.config.configure_logging)  
Configure the global loguru logger for an application entry point.