jdmonaco

pdf-title-rename

A script to batch rename PDF files based on metadata/XMP title and author

natneuro-latex-template

LaTeX manuscript template based on a Nature Neuroscience submission

neuroswarms

Neural swarming controller models for multi-agent and single-entity simulations.

run

Fast, convenient bash scripts in any directory.

add-mindmap-site

Script to add website-archive of a mindmap exported from iThoughts to a local web root.

annot2md

Script workflow for using Skim/BibDesk on OS X to extract Adobe-style PDF annotations into beautiful markdown output.

git-latexdiff

A bash script for creating LaTeX diffs from git revisions

floyd-simulator

Extensible python-based declarative neuronal network simulator with interactive visualization.

fly-clock-models

Statistical and biophysical modeling and analysis code for Tabuchi, Monaco, et al. (2018).

roto

A large bag of data analysis tools that have proven useful over time.

skaggs

Neural data analysis framework for single-unit spatial experiments [WIP]

specify

Automatic heritable parameter specification framework

spikemaps

Adaptive kernel-based spatial maps for neural spike-trajectory data.

arenas

Geometric SVG-based environments for 2D spatial simulations and mazes

cv

LaTeX source for my curriculum vitae.

flux-ios-xcode

This is a copy of the f.lux for iOS Xcode project that was briefly available for sideloading.

genn

GeNN is a GPU-enhanced Neuronal Network simulation environment based on code generation for Nvidia CUDA.

jdmonaco.github.io

lcomodel

Location-Controlled Oscillator Model. As presented at SfN 2014.

manim

Animation engine for explanatory math videos

param

Param: Make your Python code clearer and more reliable by declaring Parameters

pouty

Flexibly display colorful messages to the shell, logfiles, and notifications.

procedural_paper

Paper on using GeNN for simulating very large-scale models

scanning-paper

Source code for rodent head-scanning and place-field analysis presented in Monaco et al. (2014).

tenko

Persistent self-documenting context for scientific computing and data analysis

tgrep

An ack-like recursive grep of source code trees that is also a simple python script.

toolbox

Common tools and shared definitions that support my other packages

vim-applescript

Vim syntax highlighting for AppleScript.

vim-colors-solarized

precision colorscheme for the vim text editor

xppy

XPPy is Python interface for Bard Ermentrout's XPP.