vrettasm
Computational scientist with a background in Bayesian analysis and machine learning.
ICAR-CNRNapoli, Italy
Pinned Repositories
analysis_code_Man_et_al
Analysis code for the paper Man et. al. 2020.
HamiltonianMonteCarlo
Hamiltonian Monte Carlo (HMC) sampling method in Python3, based on the original paper: Simon Duane, Anthony D. Kennedy, Brian J. Pendleton and Duncan Roweth (1987). "Hybrid Monte Carlo". Physics Letters B. 195 (2): 216–222.
HMCpp
Hamiltonian Monte Carlo (HMC) sampling method in C++11.
HydroModel
Hydrological Model (Berkeley). This project implements the underground (stochastic) hydrological model (in Python) that was developed during my postdoctoral tenure at the Dept. of Earth & Planetary Science, U. C. Berkeley, (2013 - 2016).
MeanFieldVarGP
Mean field variational Gaussian process algorithm. This repository contains a python3 implementation of the variational mean field algorithm as described in the paper: Physical Review E. vol. 91, 2015, 012148.
MetalHawk
A machine learning-based approach for classifying metal site geometry.
NapShift
This repository provides a Python implementation of the NapShift program to predict the backbone atoms' chemical shift values, from NMR protein PBD structures, using artificial neural networks.
PyCamcoil
Provides a Python implementation of the camcoil program (originally written in C) to estimate the random coil chemical shift values from a sequence (string) of amino-acids.
PyGeneticAlgorithms
This repository implements a genetic algorithm (GA) in Python3 programming language, using only Numpy and Joblib as additional libraries. It provides a basic StandardGA model as well as a more advanced IslandModelGA that evolves in parallel several different populations..
VGPA
Variational Gaussian Process Approximation. This project contains a python3 implementation of the original VGPA algorithm for approximate inference in SDEs.
vrettasm's Repositories
vrettasm/HydroModel
Hydrological Model (Berkeley). This project implements the underground (stochastic) hydrological model (in Python) that was developed during my postdoctoral tenure at the Dept. of Earth & Planetary Science, U. C. Berkeley, (2013 - 2016).
vrettasm/VGPA
Variational Gaussian Process Approximation. This project contains a python3 implementation of the original VGPA algorithm for approximate inference in SDEs.
vrettasm/MetalHawk
A machine learning-based approach for classifying metal site geometry.
vrettasm/HamiltonianMonteCarlo
Hamiltonian Monte Carlo (HMC) sampling method in Python3, based on the original paper: Simon Duane, Anthony D. Kennedy, Brian J. Pendleton and Duncan Roweth (1987). "Hybrid Monte Carlo". Physics Letters B. 195 (2): 216–222.
vrettasm/MeanFieldVarGP
Mean field variational Gaussian process algorithm. This repository contains a python3 implementation of the variational mean field algorithm as described in the paper: Physical Review E. vol. 91, 2015, 012148.
vrettasm/NapShift
This repository provides a Python implementation of the NapShift program to predict the backbone atoms' chemical shift values, from NMR protein PBD structures, using artificial neural networks.
vrettasm/analysis_code_Man_et_al
Analysis code for the paper Man et. al. 2020.
vrettasm/HMCpp
Hamiltonian Monte Carlo (HMC) sampling method in C++11.
vrettasm/PyCamcoil
Provides a Python implementation of the camcoil program (originally written in C) to estimate the random coil chemical shift values from a sequence (string) of amino-acids.
vrettasm/PyGeneticAlgorithms
This repository implements a genetic algorithm (GA) in Python3 programming language, using only Numpy and Joblib as additional libraries. It provides a basic StandardGA model as well as a more advanced IslandModelGA that evolves in parallel several different populations..
vrettasm/SCGpp
Scaled conjugate gradient (SCG) optimization algorithm.
vrettasm/SOMap
Self organizing maps (SOM) in Python3.
vrettasm/vrettasm
About Me