Welcome to ReCoDE

Research Computing and Data Science Exemplars for Learning and Teaching

A set of research computing exemplars with rich learning annotation for doctoral students and researchers who are working on projects with significant computational aspects.

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Gene Network Analysis
Anjali Golding

Python

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Single-Cell RNA Sequencing, Methods for Single-Cell Gene Network Analysis, Gene Set Enrichment Analysis, Visualisation, Natural language processing, Data analysis

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Modelling Organic Crystals Using a Lattice Hamiltonian
Lucy Hart

Python

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Parallel Computing, Visualisation, Seaborn

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Stochastic Population Dynamics in Changing Environments
Hanchun Wang

Python

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Stochastic Differential Equations, Ordinary Differential Equations

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Navier-Stokes Propagator
Zhao Chua Khoo

Julia

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Object-Oriented Programming, Unit Testing

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Mathematics of the Mandlebrot Set
Juan Carlos Bilbao-Ludena

C++

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Parallel Computing, Visualisation

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Neural Ordinary Differential Equations
Ekin Ozturk

Python

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Machine Learning, PyTorch, Ordinary Differential Equations, Nonlinear Feedback Control, Optimisation

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Predicting Colitis with Penalised Regression
Fabio Feser

R

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Statistics, Logistic Regression

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Environmental Literature Analysis with BERTopic & RoBERTa
Yurong Yu

Python

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Topic Modelling, BERTopic, RoBERTa, Natural Language Processing

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Cracking Time's Code: Survival Analysis of Large Datasets
Valentina Quintero Santofimio

R

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Epidemiology, Statistics

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Hand-eye Calibration of Medical Robots
Zejian Cui

C++

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Robotics, Computer Vision

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Turing Patterns & Partial Differential Equations
Elliot James Badcock

Fortran

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Fortran Package Manager, Partial Differential Equations, LAPACK, Finite Difference Method, Unit Testing

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Deep Learning Best Practices
Antoni Bigata Casademunt

Python

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PyTorch, Machine Learning, Best practices

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SPH Solver for 2D Navier-Stokes
Georgios Efstathiou

Python C++

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Boost, Fluid Dynamics, Optimisation, Object Oriented Programming, Profiling, Visualisation, Matplotlib, CMake

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Hidden Markov Models for behavioural states
Laurence Blackhurst

Python

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Pandas, Machine Learning

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Decoding Market Signals
Benjamin Scharpf

Python

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Pandas, Finance, Logistic Regression

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Binary Classification of Patent Texts
Egheosa Ogbomo

Python

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NumPy, Tensorflow, Scikit Learn, Object Oriented Programming, Data Analysis, Machine Learning, NLTK, Natural Language Processing, Patents, Statistics

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CNNs for the Cosmic Dawn
Kimeel Sooknunan

Python

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NumPy, Tensorflow, Scikit Learn, Pandas, Convolutional Neural Networks, Machine Learning

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Solving SDEs with Euler-Maruyama
Antonio Malpica-Morales

Python

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Object Oriented Programming, NumPy, Stochastic Differential Equations, Uncertainty Quantification, Probability Distributions, Matplotlib

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Multi-channel Python GUI
Shuaixun Wang

Python

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NumPy, GUI

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RNA Sequencing Analysis
Jack Gisby

Python R bash

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HPC, Conda, Nextflow, Docker

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Bayesian Inference for SARS-CoV-2 Transmission
Bethan C Daniels

R

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Stan, Unit Testing, Epidemiology

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1-Dimensional Neutron Diffusion Solver
Jack Trainor

Fortran

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Nuclear Physics, Object Oriented Programming, CMake, PETSc, Visualisation, Optimisation, Physics, Paraview, Finite Difference Method

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Markov Chain Monte Carlo for fun and profit
Tom Hodson

Python

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Unit Testing, Optimisation, Statistics, Physics

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PyTorch for end-to-end deep learning
Emily Muller

Python

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pyTorch, Tensorflow, Computer Vision, Machine Learning, HPC

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