Data, analysis, and figure scripts from: Wiring variations that enable and constrain neural computation in a sensory microcircuit. Tobin WF, Wilson RI, Lee WC. eLife. 2017.
See the included LICENSE file for information on use, copy, modification, and/or distribution of this software and data.
Attribute with the above citation when using this data or software in publication.
Modeling and simulation files (./nC_projects_lite/) available at https://neurodata.io/data/tobin17 download and uncompress into the this repo’s root directory.
Tools to interact with catmaid are available here: https://github.com/htem/catmaid_tools.
Scripts and code for running simulations likely require modification to suit your computational environment.
Many scripts have dependencies including:
Additional information should be listed in file headers.
Be sure to add ./functions/ directory to your MATLAB path.
Simulations require the NEURON simulation environment (Hines and Carnevale, 1997): https://www.neuron.yale.edu/neuron/download
Simulations were conducted on the Orchestra High Performance Compute Cluster at Harvard Medical School. This NIH supported shared facility consists of thousands of processing cores and terabytes of associated storage and is partially provided through grant NCRR 1S10RR028832-01. See http://rc.hms.harvard.edu for more information.
Scripts work on a Intel(R) Xeon(R) CPU E5520 workstation with 16 cores and 72 GB RAM, running Ubuntu 12.04 x64 and MATLAB (R) R2015a (8.5.0.197613) 64-bit (glnxa64).
SOFTWARE IS PROVIDED "AS IS", WITHOUT SUPPORT, AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT, INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR PERFORMANCE OF THIS SOFTWARE.