Lists (10)
Starred repositories
Auto Ontology is a Python framework for building semantic, graph-based reasoning layers over data. It enables deterministic query generation, better context retrieval, and more explainable AI for L…
Read/write functions to and from spatialdata for Deep Visual Proteomics
anndata proteomics bridge v2 — rules-driven vendor-table to AnnData conversion (successor to anndata-proteomics-bridge)
A curated list of awesome autonomous researcher frameworks
Active learning framework for iterative optimisation of biological and chemical design targets
Tool suite for kappa models. Documentation and binaries can be found in the release section. Try it online at
A high-throughput and memory-efficient inference and serving engine for LLMs
LMCache: Supercharge Your LLM with the Fastest KV Cache Layer
bunnelab / virtues
A spatial proteomics foundation model for analyzing multiplexed tissue imaging data across molecular, cellular and tissue scales enabling clinical diagnostics, biological discovery and patient case…
The open-source app everyone uses to manage agents at work
run-llama / ExtractBench
Forked from run-llama/ParseBenchExtractBench - A Benchmark for Schema-Guided Enterprise Document Extraction
A fast, helpful, and open-source document parser
ParseBench - A Document Parsing Benchmark for AI Agents
📓 Lint commit messages
scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
Easy to use suite for designing a wide range of protein binder modalities.
SciGraphs: Graph Visualization and Analysis within Blender
Unifying physical and molecular coordinates systems across modalities in spatial biology
Open-source SBDD toolkit for standardized import of binding poses, restrained OpenMM minimization, pose QC, protein-ligand interaction analysis, ligand strain analysis, MD simulation, and integrate…
Backend library for benchmarking LLMs through templates
Confidence Estimation for Mass Spectrometry Proteomics
High-performance Rust + Python readers for mass spectrometry / proteomics raw data.