Allen Brain Atlas API
ALLEN BRAIN ATLAS API
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The primary data of the Allen Mouse Brain Connectivity Atlas consists of high-resolution images of axonal projections targeting different anatomic regions or various cell types using Cre-dependent specimens. Each data set is processed through an informatics data analysis pipeline to obtain spatially mapped quantified projection information.
This document provides a brief overview of the data, database organization and example queries. API database object names are in camel case. See the main API documentation for more information on data models and query syntax.
EXPERIMENTAL OVERVIEW AND METADATA
Experimental data from the Atlas is associated with the "Mouse Connectivity Projection" Product.
- RMA query to fetch meta-information of one projection image
- Download image downsampled by factor of 6 using default thresholds
- Download a region of interest at full resolution using default thresholds
INFORMATICS DATA PROCESSING
The informatics data processing pipeline produces results that enable navigation, analysis and visualization of the data. The pipeline consists of the following components: