Resources

Alexander Mordvintsev (Google), Eyvind Niklasson (Google), and Ettore Randazzo (Google):

• Growing Neural Cellular Automata: Differentiable Model of Morphogenesis (2020)

Erik Hoel (Tufts University) and Brennan Klein (Northeastern University):

• Analyzing causal emergence in networks (2019)

Franz Kuchling (Tufts University):

• MorphoBayes - Bayesian modeling of morphogenesis (2019)

Douglas Moore (Tufts University/ASU):

• Moore, D., and McMillen, P., (2019):
  CAIM: information analysis of imaging data
• Moore, D., Levin, M., and Walker, S., (2016):
  "Inform: A Cross Platform C library for Information Analysis of Dynamical Systems"
• Moore, D., Levin, M., and Walker, S., (2016):
  "PyInform: A Python Wrapper for the Inform Information Analysis Library"
• Moore, D., Levin, M., and Walker, S., (2016):
  "Cellular: A simple, extensible cellular automaton library"
• Moore, D., Levin, M., and Walker, S., (2016):
  "Annette: A recurrent artificial neural network library"
• Moore, D., Levin, M., and Walker, S., (2016):
  "Neato: An implementation Ken Stanley’s NeuroEvolution of Augmenting Topologies"

Cuong Nguyen (Allen Discovery Center at Tufts University):

• Nguyen, C., and Levin, M., (2017):
  "Baccountant: a software package for quantifying bacterial colony growth"
  For Windows (.zip file) | For Mac (.zip file) | Learn how to use the software (video tutorials)

Alexis Pietak (Allen Discovery Center at Tufts University):

• Pietak, A., and Levin, M., (2019):
  "PLIMBO (Planarian Interface for Modelling Body Organization)"
• Pietak, A., and Levin, M., (2016):
  "BETSE - BioElectric Tissue Simulation Engine"

Cecil Curry:

• "BETSEE: a front-end GUI for the BETSE package

Micah Brodsky (Tufts University/MIT):

• Brodsky, M., Pietak, A., and Levin, M., (2017):
  "GABEE - Genetic Algorithm for Bio-Electric Exploration"

Chris Fields

• Fields, C. and Levin, M., (2018):
  "Somatic cells protect stem cells from a lethal environment"
• Fields, C. and Levin, M., (2018):
  "Neoblast competition simulation"

Daniel Lobo (Tufts University/University of Maryland):

• Planform - planarian regeneration expert system
• Limbform - limb regeneration expert system
• Planarian regeneration simulation software