Downloading 3-D Expression Grid Data

Allen Brain Atlas API > Downloading 3-D Expression Grid Data > voxel_level_expression.png Download 3-D expression grid data packaged into a compressed archive file (.zip).

Prototype

http://api.brain-map.org/grid_data/download/[SectionDataSet.id]&include=[volumes]

Examples

Download the intensity and density volumes for SectionDataSet 69816930:

http://api.brain-map.org/grid_data/download/69816930?include=intensity,density

Download the energy volume for the Mouse Brain Atlas' coronal Adora2a experiment.

First, search for relevant experiments' IDs (SectionDataSets):

http://api.brain-map.org/api/v2/data/query.xml?criteria=
model::SectionDataSet,
rma::criteria,[failed$eq'false'],products[abbreviation$eq'Mouse'],plane_of_section[name$eq'coronal'],genes[acronym$eq'Adora2a']

Second, download the energy volume for each of the experiments' IDs:

http://api.brain-map.org/grid_data/download/72109410

Parameters

filename	Integer	ID of the desired SectionDataSet.
volumes	Array (optional)	Explicitly list the desired volumes as a comma-separated list. Valid volumes are energy, intensity and density. An additional volume of injection is available for Projection SectionDataSets.

Response

Zip file (.zip) containing a folder filled with the default files (data_set.xml, energy.mhd, energy.raw) or the requested data volumes.

data_set.xml	XML file with details regarding the specimen and images that is only returned if the volumes parameter is null.
energy.mhd	A simple text header file in MetaImage format describing the volume. This file is returned by default if the volumes parameter is null.
energy.raw	A raw uncompressed float (32-bit) little-endian volume representing average expression energy per voxel. A value of "-1" represents no data. This file is returned by default if the volumes parameter is null.
density.mhd	A simple text header file in MetaImage format describing the volume.
density.raw	A raw uncompressed float (32-bit) little-endian volume representing average expression density per voxel. A value of "-1" represents no data.
intensity.mhd	A simple text header file in MetaImage format describing the volume.
intensity.raw	A raw uncompressed float (32-bit) little-endian volume representing average expression intensity per voxel. A value of "-1" represents no data.
injection.mhd	A simple text header file in MetaImage format describing the volume.
injection.raw	A raw uncompressed float (32-bit) little-endian volume representing the proportion of pixels within each voxel that were within the manually annotated injection site.