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TransformerCPI: Improving compound–protein interaction prediction by sequence-based deep learning with self-attention mechanism and label reversal experiments(BIOINFORMATICS 2020) https://doi.org/10.1093/bioinformatics/btaa524
Data visualisation web components for the life sciences.
Apache cTAKES is a Natural Language Processing (NLP) platform for clinical text.
A tool for cell instance aware segmentation in densely packed 3D volumetric images
Auto-QChem is an automated workflow for the generation and storage of DFT calculations for organic molecules.
OCaml Bioinformatics Library
CASSIA: A Multi-Agent LLM-Based Single-Cell Cell Type Annotation Framework
We would like to maintain a list of resources which aim to solve molecular docking and other closely related tasks.
TypeDB Bio: Biomedical Knowledge Graph
Autonomous multi-agent framework to optimize scientific software
NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions
:art: Image processing toolbox for R
A library to build and execute typed scientific workflows
MCP server for spatial transcriptomics analysis through natural language interfaces.
A cheminformatics extension for the SQLAlchemy database toolkit.
Fast, deterministic cell-type deconvolution for million-bin spatial transcriptomics
chemmodlab: A Cheminformatics Modeling Laboratory for Fitting and Assessing Machine Learning Models
UV-first benchmark for protein-ligand docking with reproducible annotation, pocket similarity, and HPC workflows.
Bioinformatics-themed kata for practicing string manipulation in a data transformation pipeline. Contains replit files to work quickly in an online dojo setting.
Kekule widget for common-lisp-jupyter