marderlab / xolotl-paper

Paper describing the xolotl neuron and network simulator. Includes Latex source and MATLAB code to reproduce every figure in the paper.

xolotl: An Intuitive and Approachable Neuron & Network Simulator

This repository contains code, latex documents and supporting images that allows you to reproduce all figures and text in this paper.

Status

The paper has been published in Frontiers in Neuroinformatics. https://www.frontiersin.org/articles/10.3389/fninf.2018.00087/full

This paper is now at the "preprint" stage, and has been submitted. You can read it on the arXiv here

Structure

The Latex source for the paper is in paper/

MATLAB scripts to make every figure in the paper are in figures/. You should be able to run each script and it should make the figure exactly as it appears in the paper.

Building

macOS

Using a complete TeX distribution (I used MacTex), paper.tex can be compiled using:

1. open paper.tex in TexShop
2. ⌘ + ⇧ + L
3. ⌘ + ⇧ + B
4. ⌘ + ⇧ + L

(Yes, you have to typeset it twice, first for Latex to figure out which citations you're using, then to insert them)

Troubleshooting

If something goes wrong, you are probably missing a package. Try removing all aux files and trying again.