makagan / TRISEP_Tutorial

TRISEP 2024 - Machine Learning Tutorial and Excercises

Prerequisites

Prerequisites for the course include basic knowledge of GitHub, Colab and python. It is thus required before the course to go through these slides as well as the following two python basics notebooks:

• python_intro_part1.ipynb
  • Quickstart
  • Indentation
  • Comments
  • Variables
  • Conditions and if statements
  • Arrays
  • Strings
  • Loops: while and for
  • Dictionaries
• python_intro_part2.ipynb
  • Functions
  • Classes/Objects
  • Inheritance
  • Modules
  • JSON data format
  • Exception Handling
  • File Handling

Tutorials

A variety of tutorial notebooks below will introduce you to advanced python, PyTorch. The later excercises will not focus on PyTorch Geometric for using Graph Neural Networks or Decision Tree Models, but we have added a tutorial in case you would like to explore.

General: Advanced Python

• Intro to Numpy: numpy_intro.ipynb
• Intro to Pandas: pandas_intro.ipynb
• Intro to Matplotlib: matplotlib_intro.ipynb

General: Introduction to PyTorch

• Intro to PyTorch: pytorch_intro.ipynb and pytorch_NeuralNetworks.ipynb

PyTorch Geometric (PyG)

• Intro to PyTorch Geometric: 1.IntroToPyG.ipynb
• Node classification with PyG on Cora citation dataset: 2.KCNodeClassificationPyG.ipynb
• Graph classification with PyG on molecular prediction dataset: 3.TUGraphClassification.ipynb

Decision Trees with scikit-learn

• Decision tree models sxample: DecisionTrees.ipynb

Excercises

The excercises are organized by day to follow along with you lecture materials. Each notebook will have open questions and code for you to fill in. They are roughly numbered in the order to be explored. The solutions are also provided:

Day 1: Linear Models

• Fitting models and bias-variance tradeoff: 1.1.Fitting-and-Bias-Variance-Tradeoff.ipynb
• Logistic and Linear Regression trained with gradient descent: 1.2.Intro-LinearModels-SGD.ipynb

Day 2: Neural Networks

• Make a neural network by hand: 2.1.First-NN.ipynb
• Train a neural network with PyTorch:2.2.Intro-NN-pytorch.ipynb
• Train a neural network on the MNIST data set: 2.3.NN-MLP-MNIST.ipynb

Day 3: Deep Neural Networks

• Train a multi-layer MLP: 3.1.Going-Deeper.ipynb
• Train a convolutional neural network on MNIST: 3.2.ConvNet-MNIST.ipynb

Day 4: Unsupervised Learning

• Apply principle components analysis to MNIST:4.1.PCA-MNIST.ipynb
• Train an autoencoder on MNIST: 4.2.AutoEncoder-MNIST.ipynb

Day 5: Deep Generative Models

• Train a variation autoencoder and conditional variational autoencoder on MNIST: 5.VariationalAutoEncoder-MNIST

Other Resources

• Pattern Recognition and Machine Learning, Bishop (2006) -- 'link'
• Deep Learning, Goodfellow et al. (2016) -- link
• Introduction to machine learning, Murray (2010) -- video lectures
• Stanford ML courses -- link
• Francois Fleuret course on deep learning -- link
• Gilles Louppe course on deep learning -- link