allen atlas brain toolbox

The Brain Gene Expression Analysis toolbox

This toolbox is a Matlab implementation of computational techniques for the quantitative analysis of digitized brain-wide gene-expression data from the Allen Atlas of the adult mouse brain (last updated: October 15 2013, cell-type-specific data added to the toolbox).

The techniques include:

  1. visualizations of voxelized data (at a spatial resolution of 200 microns);
  2. comparison of gene expression to classical neuroanatomy (defined by the Allen Reference Atlas);
  3. statistical study of co-expression networks of sets of genes;
  4. clustering of sets of genes and voxels.

The toolbox can be downloaded as a compressed archive (zip format) of the code, and is accompanied by documentation in PDF format in a separate file.

To start downloading the documentation, click on the appropriate link below:

Toolbox

Documentation

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