get_superstructures: Returns all superstructures of a brain region using the Allen...

In sgrote/ABAEnrichment: Gene expression enrichment in human brain regions

Description

Returns all superstructures of a brain region and the brain region itself given a structure ID, e.g. 'Allen:10657' as used throughout the ABAEnrichment package. The output vector contains the superstructures according to the hierarchy provided by the Allen Brain Atlas ontology [1,2] beginning with the root ('brain' or 'neural plate') and ending with the requested brain region.

Usage

    get_superstructures(structure_id)

Arguments

structure_id

a brain structure ID, e.g. 'Allen:10657' or '10657'

Value

vector of brain structure IDs that contains all superstructures of the requested brain region and the brain region itself. The order of the brain regions follows the hierarchical organization of the brain.

Note

The ontologies for the adult and the developing human brain are different.

Author(s)

Steffi Grote

References

[1] Allen Institute for Brain Science. Allen Human Brain Atlas. Available from: http://human.brain-map.org/
[2] Allen Institute for Brain Science. BrainSpan Atlas of the Developing Human Brain. Available from: http://brainspan.org/

See Also

get_name
get_id
get_sampled_substructures

Examples

## Get the IDs of the superstructures of the precentral gyrus
## (adult brain ontology)
get_superstructures('Allen:4010')

## Get the IDs and the names of the superstructures
## of the dorsolateral prefrontal cortex 
## (developing brain ontology) 
data.frame(superstructure=get_name(get_superstructures("Allen:10173")))

sgrote/ABAEnrichment documentation built on July 15, 2019, 9:38 p.m.