Script to download expression data from the Allen Mouse Brain data portal ABI. This script will query the database, download available data, convert it from the raw/mhd format to NIfTI, and register it to a standard space (DSURQEC, as seen in the relevant mouse brain preprocessing article).
Current recommended release in bold typeface:
Citation guidelines for use of the Allen mouse brain atlas can be found at: https://alleninstitute.org/legal/citation-policy/
Script mhd_utils_3d.py
Author: bjian,Price Jackson
Source: https://sites.google.com/site/pjmedphys/scripts
(slightly adapted for compatibility with newer Python versions)
In order to create a new version of the ABI-expression data package, simply navigate to the root directory of this repository and run:
python abi_expression.py -v 0.5
This will create archives with the newest files fetched from upstream and processed according to the instructions standardized in this package.
The version suffix will be 0.5 (as per the -v 0.5 parameter).