peterjameswinn Goto Github PK

causalnetworkgenerator

codinganeuralnetfromscratch

Coding a neural network from scratch using Numpy in Python

deepcdpred

Material associated with our PLoS One paper on DeepCDpred. DeepCDpred: Inter-residue distance and contact prediction for improved prediction of protein structure: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0205214 Please see the README.md, or the PlosOne publication for author contributions. I did not write this code, but rather the students in my research group.

dynamicprogrammingexercises

Practising different ways of coding the evaluation of the Fibonnaci sequence in Python and benchmarking them. Including recursion with and without memoisation, using a loop and memoisation, and an object based coding solution.

esm

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

github-slideshow

A robot powered training repository :robot:

learningbasicaltairfunctionality

Practicing using Altair to produce .html files with interactive plots. For this example I used cellular location data. More information about Altair here: https://altair-viz.github.io/getting_started/overview.html

learningbasicsql

Some basic exercises in SQL

learningkerasandtensorflow

Some exercises to learn Keras and Tensor flow. The code here loosely follows the teaching on the free Udacity course accessable from tensorflow.org, and also includes some exercises borrowed from Justin Johnson's lectures on Deep Learning for Vision, delivered at Michigan University, although these latter are originally set in PyTorch so require some adaptation for Keras.

lstms

RNN and LSTM models for generating text

mslearn-mlops

microsoft mlops course

pytorch

Examples of simple PyTorch uses including geometric deep learning in PyG

rdkit_tutorials

some basic scripts for using RDKit for manipulating chemical structures.

skills-code-with-codespaces

My clone repository

skills-copilot-codespaces-vscode

My clone repository

transferlearning

Some experiments to practice transfer learning

transformers

Coding a generative self attention transformer follow Andrej Karpathy's YouTube tutorial