Pinned Repositories
dissertation
My doctoral dissertation TeX source files.
ferreira_malaria_model
This code performs the ODE modeling from Rijo-Ferreira et al., Science 2020
GABAergic_unconsciousness
Code for classification of unconsciousness during GABAergic anesthesia. Results in Abel, Badgeley, ... Purdon, Brown, PLoS ONE.
gillespy
A Python package for stochastic model building and simulation. Published as Abel et al., IEEE Life Sci Lett 2017.
mazuski_vip_firing_optogenetics
Rough code and data for spike pattern ID and in vivo analysis used in Mazuski, Abel, ... Doyle III, Herzog. Neuron, 2018
nonlinear_mpc_for_circadian_entrainment_ifac2017
Python code for performing the model predictive control simulations from Abel, Chakrabarty, and Doyle, IFAC World Congress 2017
per2py
Python code for automated analysis of Per2::iLuc bioluminescence data. Published in Shan, Abel, ... Doyle III, Takahashi, Neuron 2021.
spikesort
Python code for sorting multiday recordings from multielectrode arrays. Written for Herzog lab, WUSTL.
johnabel's Repositories
johnabel/gillespy
A Python package for stochastic model building and simulation. Published as Abel et al., IEEE Life Sci Lett 2017.
johnabel/nonlinear_mpc_for_circadian_entrainment_ifac2017
Python code for performing the model predictive control simulations from Abel, Chakrabarty, and Doyle, IFAC World Congress 2017
johnabel/mazuski_vip_firing_optogenetics
Rough code and data for spike pattern ID and in vivo analysis used in Mazuski, Abel, ... Doyle III, Herzog. Neuron, 2018
johnabel/per2py
Python code for automated analysis of Per2::iLuc bioluminescence data. Published in Shan, Abel, ... Doyle III, Takahashi, Neuron 2021.
johnabel/GABAergic_unconsciousness
Code for classification of unconsciousness during GABAergic anesthesia. Results in Abel, Badgeley, ... Purdon, Brown, PLoS ONE.
johnabel/spikesort
Python code for sorting multiday recordings from multielectrode arrays. Written for Herzog lab, WUSTL.
johnabel/dissertation
My doctoral dissertation TeX source files.
johnabel/ferreira_malaria_model
This code performs the ODE modeling from Rijo-Ferreira et al., Science 2020
johnabel/abel_latex_source_files
johnabel/alternans_control
Code approaching treating electrical alternans as a control problem.
johnabel/circadian-analysis-by-pixel
johnabel/circadian_MPC_automatica
Code for the paper on circadian control by Abel at al., Automatica 2019
johnabel/circadian_tools
Code for analysis of circadian data used in my dissertation. Generally, poorly documented.
johnabel/critical_resetting
Code for looking at critical resetting of circadian rhythms. Some of this was in a talk at SRBR 2018.
johnabel/Deep-Reinforcement-Learning-Hands-On
Hands-on Deep Reinforcement Learning, published by Packt
johnabel/ferreira_malaria_analysis
Malaria circadian data analysis for Rijo-Ferriera et al., Science 2020
johnabel/johnabel.github.io
johnabel/scn-resynchronization-data-2016
Experimental data used in ``Funtional network inference of the suprachiasmatic nucleus'' by J.H. Abel et al. PNAS 2016.
johnabel/shan_abel_AVP_VIP_modeling
This code performs all deterministic and stochastic simulations from Shan, Abel... Doyle III, Takahashil, Neuron 2020
johnabel/StochKit
StochKit is an extensible tool for stochastic simulation tool with stochastic and multiscale algorithms.
johnabel/stochss
StochSS - Stochastic Simulation Service.