Stars
Code for batch and biological effect deconfounding by variance decomposition for scRNAseq data
A large (+2500) collection of colormaps and palettes for Python 🎨
Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
CancerFoundation: A single-cell RNA sequencing foundation model to decipher drug resistance in cancer
Identification of clone-specific and cancer-selective multi-targeting therapeutic options based on single-cell transcriptomic profiles of cancer patients
DeepSpot: Deep learning model for predicting spatial transcriptomics from H&E histopathology images. Supports spot-level (Visium) and single-cell (Xenium) resolution.
A package to help convert different single-cell data formats to each other
Scripts used in the lifespan manuscript
Unsupervised Deep Disentangled Representation of Single-Cell Omics
An extremely fast Python package and project manager, written in Rust.
An open-source AI agent that brings the power of Gemini directly into your terminal.
State is a machine learning model that predicts cellular perturbation response across diverse contexts
Probabilistic cell segmentation for in situ spatial transcriptomics
Python code to estimate mutual information between variables using a maximum likelihood approach.
LIANA+: an all-in-one framework for cell-cell communication
Easily fine-tune, evaluate and deploy Gemma 4, Qwen3.5, Qwen3.6, gpt-oss, DeepSeek-R1, or any open source LLM / VLM!
Fully open reproduction of DeepSeek-R1
An object-oriented algebraic modeling language in Python for structured optimization problems.