Python tools for interacting with CATMAID projects
This is a slowly increasing toolbox for extracting CATMAID (http://www.catmaid.org) annotations, typically EM reconstructions of neurons and eventually visualizing and doing various kinds of analysis of neuronal morphology, connectivity, and connections between the two. See Quantitative neuroanatomy for connectomics in Drosophila for more details of what sort of things will eventually be possible.
Under development, so I suggest installing via python setup.py develop.
If you'd rather use Matlab, you will need to install
- matlab-json — To quickly parse JSON files. Download here.
A similar tool, nat, has been developed by Greg Jefferis for R.