Repository for Nicheformer: a foundation model for single-cell and spatial omics

A curated list of Knowledge Graph related learning materials, databases, tools and other resources

ICLR'24 | BioBridge: Bridging Biomedical Foundation Models via Knowledge Graphs

The code and data for "StructGPT: A general framework for Large Language Model to Reason on Structured Data"

Static plotting for spatialdata

Awesome papers about unifying LLMs and KGs

Implementation of DALL-E 2, OpenAI's updated text-to-image synthesis neural network, in Pytorch

A pixel classification based multiplexed image segmentation pipeline

Overview repository on IMC data analysis

🤗 Diffusers: State-of-the-art diffusion models for image and audio generation in PyTorch and FLAX.

GLIDE: a diffusion-based text-conditional image synthesis model

CellViT: Vision Transformers for Precise Cell Segmentation and Classification

A survey on data-centric foundation models in healthcare.

Towards a general-purpose foundation model for computational pathology - Nature Medicine

A vision-language foundation model for computational pathology - Nature Medicine

Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

A Python module for computing the Structural Similarity Image Metric (SSIM)

ImageBind One Embedding Space to Bind Them All

napari: a fast, interactive, multi-dimensional image viewer for python

Convert results of a MeroX analysis to proxl XML for import into proxl.

A Leaflet control to add a split screen to compare two map overlays

Adapting Meta AI's Segment Anything to Downstream Tasks with Adapters and Prompts

Adapting Segment Anything Model for Medical Image Segmentation

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

Embed visualizations and code from Observable notebooks in Jupyter

A concise API for exploratory data visualization implementing a layered grammar of graphics

DANCE: a deep learning library and benchmark platform for single-cell analysis