API Documentation

The class and package diagrams can be found at the developer documentation.

`Siibra`

`siibra.commons`	Constants, functions, and classes used commonly across siibra.
`siibra.configuration`	Handles reconfiguration management and building instances
`siibra.core`	Main siibra concepts
`siibra.explorer`
`siibra.features`	Multimodal data features types and query mechanisms.
`siibra.livequeries`	Feature queries requiring live query or on-the-fly calculations.
`siibra.locations`	Handles spatial concepts and spatial operation like warping between spaces.
`siibra.retrieval`	File digestion and caching.
`siibra.vocabularies`	Abbreviations and aliases.
`siibra.volumes`	Package handling variety of volumes

`siibra.core.atlas`	Provides reference systems for brains.
`siibra.core.concept`	Parent class to siibra main concepts.
`siibra.core.parcellation`	Hierarchal brain regions and metadata.
`siibra.core.region`	Representation of a brain region.
`siibra.core.relation_qualification`	Qualification between two arbitary concepts
`siibra.core.space`	A particular brain reference space.

`siibra.volumes.gifti`	Handles reading and preparing gii files.
`siibra.volumes.neuroglancer`	Handles reading and preparing neuroglancer files.
`siibra.volumes.nifti`	Handles reading and preparing nifti files.
`siibra.volumes.parcellationmap`	Provides spatial representations for parcellations and regions.
`siibra.volumes.sparsemap`	Represents lists of probabilistic brain region maps.
`siibra.volumes.volume`	A specific mesh or 3D array.

`siibra.locations.boundingbox`	A box defined by two farthest corner coordinates on a specific space.
`siibra.locations.location`	Concpets that have primarily spatial meaning.
`siibra.locations.point`	Singular coordinate defined on a space, possibly with an uncertainty.
`siibra.locations.pointset`	A set of coordinates on a reference space.

`siibra.features.anchor`	Handles the relation between study targets and AtlasConcepts.
`siibra.features.connectivity`	Multimodal data features concerning connectivity data.
`siibra.features.dataset`	Non-preconfigured data features published as datasets.
`siibra.features.feature`	Handles multimodal data features and related queries.
`siibra.features.image`	Multimodal data features in volume or image formats.
`siibra.features.tabular`	Multimodal data features in tabular formats.

`siibra.livequeries.allen`	Query Allen Human Brain Atlas microarray data in specified volume.
`siibra.livequeries.bigbrain`	Matches BigBrain intesity profiles extracted by Wagstyl et al. to volumes.
`siibra.livequeries.ebrains`	Query data features published as Ebrains datasets with AtlasConcepts
`siibra.livequeries.query`	Handles feature queries that rely on live or on-the-fly calculations.

`siibra.retrieval.cache`	Maintaining and hadnling caching files on disk.
`siibra.retrieval.datasets`	Metadata connection to EBRAINS datasets.
`siibra.retrieval.exceptions`	Exceptions concerning file retrieval processes.
`siibra.retrieval.repositories`	Connect to repositories to browse and pull files within.
`siibra.retrieval.requests`	Request files with decoders, lazy loading, and caching.