Nicholas Sofroniew's repositories
napari-training-course
Lectures for a napari training course
image-demos
imaging demos
awesome-bioimage-analysis-challenges
A list of awesome bioimage analysis challenges
proteoscope
Generating images of protein subcellular localization from sequences
bio_embeddings
Get protein embeddings from protein sequences
cytoself
Self-supervised models for encoding protein localization patterns from microscopy images
dqc
Differentiable Quantum Chemistry (only Differentiable Density Functional Theory and Hartree Fock at the moment)
enformer-pytorch
Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
esm
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
graphein
Protein Graph Library
latch_protein_embeddings
Generate protein embeddings via a latch workflow
latent-diffusion
High-Resolution Image Synthesis with Latent Diffusion Models
lightning-hydra-template
PyTorch Lightning + Hydra. A very user-friendly template for rapid and reproducible ML experimentation with best practices. ⚡🔥⚡
napari-chatgpt
A napari plugin to process and analyse images with chatGPT!
napari-roi-feedstock
A conda-smithy repository for napari-roi.
napari-stable-diffusion
A stable diffusion demo for napari
napari-tomoslice
a napari plugin for visualising electron cryotomograms
paper-qa
LLM Chain for answering questions from documents with citations
protein_generator
Joint sequence and structure generation with RoseTTAFold sequence space diffusion
tf-bind-transformer
A repository with exploration into using transformers to predict DNA ↔ transcription factor binding
website-personal
Personal website
xitorch
Differentiable scientific computing library