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yu-yang's Projects

aimd icon aimd

This is a set of Matlab scripts that can plot MSD graph and calculate the diffusivity using XDATCAR files from VASP

data-science-cheatsheet icon data-science-cheatsheet

A helpful 4-page data science cheatsheet to assist with exam reviews, interview prep, and anything in-between.

dynaphopy icon dynaphopy

Phonon anharmonicity analysis from molecular dynamics

handson-ml2 icon handson-ml2

A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in Python using Scikit-Learn, Keras and TensorFlow 2.

incar icon incar

A generic INCAR file for the density functional theory package VASP

m3gnet icon m3gnet

Materials graph network with 3-body interactions.

maml icon maml

Python for Materials Machine Learning, Materials Descriptors, Machine Learning Force Fields, Deep Learning, etc.

matador icon matador

⚗️ matador is an aggregator, manipulator and runner of first-principles calculations, written with a bent towards battery 🔋 electrode materials.

mpmorph icon mpmorph

MPmorph is a collection of tools to run and analyze ab-initio molecular dynamics (AIMD) calculations run with VASP, and is currently under development. It relies heavily on tools developed by the Materials Project (pymatgen, custodian, fireworks) and atomate.

phonon_neutron icon phonon_neutron

Tools to compare neutron scattering data with phonon calculations (MD or Frozen Phonons)

phononflow icon phononflow

A collection of tips, scripts, tools, and files to enable a better workflow for phonon calculations using VASP and phonopy.

ppr-phonon-participation-ratio icon ppr-phonon-participation-ratio

Calculation of phonon participation rates - used to characterize atomic vibrational information including the degree of localization and delocalization.

pymatgen icon pymatgen

Python Materials Genomics (pymatgen) is a robust materials analysis code that defines core object representations for structures and molecules with support for many electronic structure codes. It is currently the core analysis code powering the Materials Project.

rdfpy icon rdfpy

rdfpy is a Python module for fast computation of 2D and 3D radial distribution functions.

sgdml icon sgdml

sGDML - Reference implementation of the Symmetric Gradient Domain Machine Learning model

sitator icon sitator

Unsupervised landmark analysis for jump detection in molecular dynamics simulations.

site-analysis icon site-analysis

Tools for analysing molecular dynamics simulations using site occupations

supercell icon supercell

The program allows you to create regular structure supercell from cif file with partial occupancy and/or substitutions.

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