petermchale

diffusion

Implementation of a Denoising Diffusion Probabilistic Model with some mathematical background.

fine-tune-llm

Fine-tune open-source LLM on an instruction dataset

gnn

A collection of projects using graph neural networks implemented from first principles, and using the PyTorch Geometric library

llm-powered-applications

Orchestrating the interaction between users and Large Language Models

math105A

Numerical analysis course in Python

math9

Introductory Python course for math students

nucleotide-transformer

Using an LLM to discover the genetic causes of rare disease

pong_RL

Training a simple AI using the policy-gradient approach to Reinforcement Learning.

tumor

A spatial Markov model of agents making decisions based upon their surroundings. Stochastic optimization via Markov Chain Monte Carlo (Metropolis-Hastings algorithm). Interactive visualization of data using the JavaScript library D3.

petermchale/math105A

Numerical analysis course in Python

petermchale/tumor

A spatial Markov model of agents making decisions based upon their surroundings. Stochastic optimization via Markov Chain Monte Carlo (Metropolis-Hastings algorithm). Interactive visualization of data using the JavaScript library D3.

petermchale/denoising_coverage_profiles

Using Convolutional Neural Networks to model an association between a genomic sequence and the number of sequenced reads that align to it

petermchale/igv-grid

Create thumbnails of igv.js visualizations and view them all simultaneously in an interactive, responsive web app.

petermchale/llm-powered-applications

Orchestrating the interaction between users and Large Language Models

petermchale/gnn

A collection of projects using graph neural networks implemented from first principles, and using the PyTorch Geometric library

petermchale/Math175

Upper-division Combinatorics Class

petermchale/trfermikit

Discover VNTR-associated DELs that are hard to find using Illumina reads

petermchale/diffusion

Implementation of a Denoising Diffusion Probabilistic Model with some mathematical background.

petermchale/fine-tune-llm

Fine-tune open-source LLM on an instruction dataset

petermchale/nucleotide-transformer

Using an LLM to discover the genetic causes of rare disease

petermchale/pong_RL

Training a simple AI using the policy-gradient approach to Reinforcement Learning.

petermchale/visualize-streaming-data

Visualize the geographic location of tweets in real time using Apache Kafka

petermchale/algorithms_and_data_structures_CPlusPlus

Standard algorithm and data-structure problems in C++

petermchale/algorithms_and_data_structures_Python

Standard algorithm and data-structure problems in Python

petermchale/constraint-tools-data

petermchale/dairy-spread

Create a nice creamy spread(-sheet). Makes me want soda bread, so it does.

petermchale/docker-ci

GitHub Action CI pipeline with Docker containers

petermchale/genomics-web-app

vue app with flask REST api to process genomic data

petermchale/linkedin-learning-open-source-project-python-py3.11

petermchale/lofTolEnhancers

Code for Xu et al. Loss-of-function tolerance of enhancers in the human genome

petermchale/LOGO

petermchale/minDiffusion

Self-contained, minimalistic implementation of diffusion models with Pytorch.

petermchale/NAHRly

Genomic copy-number variant calling on NAHR-based events

petermchale/nextflow

Basic examples of nextflow syntax/usage

petermchale/petermchale.github.io

petermchale/PySyft

Perform data science on data that remains in someone else's server

petermchale/QQ-plots

Model decision making ... and the beauty of order statistics.

petermchale/truvari

Structural variant comparison tool for VCFs

petermchale/web-app-lambda-api-gateway-dynamodb

How to build a web app on AWS using lambda functions, API gateway, and DynamoDB