Jon Deaton's repositories
BraTS18-Project
Brain tumor segmentation using fully-convolutional deep neural networks.
Heat-Stroke-Prediction
Real-time heat stroke prediction via wearable sensors (Bioengineering Senior Capstone 2016-17)
HumanProteinAtlas
Protein localization in cell microscopy images Kaggle competition
Algorithms
A collection of algorithm and data structure implementations
adam
ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark and Parquet. Apache 2 licensed.
agar.io-clone
Agar.io clone written with Socket.IO and HTML5 canvas
avocado
A Variant Caller, Distributed. Apache 2 licensed.
diffusion-guidance
Diffusion guidance for Batch Bayesian Optimization
equinox
Callable PyTrees and filtered transforms => neural networks in JAX. https://docs.kidger.site/equinox/
esmjax
ESM2 protein language models in JAX/Flax
hyena-dna
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
jax
Composable transformations of Python+NumPy programs: differentiate, vectorize, JIT to GPU/TPU, and more
jondeaton.github.io
Personal website
kmer-counter
Distributed k-mer counter for High Performance Computing using MPI
OLD_jondeaton.github.io
Jon Deaton's personal webpage
Reddit-Analyzer
Analyzes reddit data
reddit-processing
preprocessing of Reddit data
slip
SLIP is a sandbox environment for engineering protein sequences with synthetic fitness functions.
snap
Stanford Network Analysis Platform (SNAP) is a general purpose network analysis and graph mining library.
TensorflowSandbox
Playground for deep learning
TransformerEngine
A library for accelerating Transformer models on NVIDIA GPUs, including using 8-bit floating point (FP8) precision on Hopper and Ada GPUs, to provide better performance with lower memory utilization in both training and inference.
Utils
For command line utilities