danieljsharpe

bayes_opt

Pure Python code for Bayesian Optimisation (BO) of a continuous objective function

cpp_primer

Various pieces of example code for learning features of C++

DISCOTRESS

🦜 DISCOTRESS 🦜 is a software package to simulate and analyse the dynamics on arbitrary Markov chains

DISCOTRESS_tools

Various scripts for analysis of the dynamics on Markov chains, and processing DISCOTRESS output

DISCOTRESS_tutorials

Learn to get started using DISCOTRESS with these tutorials! Then apply to your own Markov chains in ecology 🦜🌴 economics 💸📈 biophysics 🧬🦠 and more!

markov_visitation_probabilities

State reduction algorithm to compute visitation probabilities of a state in a finite Markov chain

metadynamics

C++ implementation of metadynamics simulation on a potential energy surface

multi_layer_perceptron

Pure Python implementation of a multi-layer perceptron (MLP) neural network

swendsen_wang_potts

Code for simulation of the Potts spin glass model by the Swendsen-Wang algorithm. The Hoshen-Kopelman algorithm is used for clustering.

transition_path_theory

Python code for transition path theory (TPT) on a graph (Markov jump process)

danieljsharpe/hello-world

danieljsharpe/stochastic_de

C++ code to solve a general stochastic differential equation (SDE)

danieljsharpe/transition_path_sampling

C++ code for transition path sampling of a N-dimensional energy surface