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ABAEnrichment (version 1.2.2)

Gene expression enrichment in human brain regions

Description

The package ABAEnrichment is designed to test for enrichment of user defined candidate genes in the set of expressed genes in different human brain regions. The core function 'aba_enrich' integrates the expression of the candidate gene set (averaged across donors) and the structural information of the brain using an ontology, both provided by the Allen Brain Atlas project. 'aba_enrich' interfaces the ontology enrichment software FUNC to perform the statistical analyses. Additional functions provided in this package like 'get_expression' and 'plot_expression' facilitate exploring the expression data.

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Version

Version

1.2.2

License

GPL (>= 2)

Maintainer

Steffi Grote

Last Published

February 15th, 2017

Functions in ABAEnrichment (1.2.2)

get_sampled_substructures

Return sampled substructures of a given brain region
plot_expression

Plot expression data for given genes and brain structure ids
get_name

Get the full name of a brain region given structure ids
aba_enrich

Test genes for expression enrichment in human brain regions
get_superstructures

Returns all superstructures of a brain region using the Allen Brain Atlas ontology
get_expression

Get expression data for given genes and brain structure ids
ABAEnrichment-package

Gene expression enrichment in human brain regions