A full spaCy pipeline and models for scientific/biomedical documents.
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Dec 4, 2025 - Python
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biomedical
Here are 570 public repositories matching this topic...
🧫 A curated list of resources relevant to doing Biomedical Information Extraction (including BioNLP)
nlp natural-language-processing text-mining awesome bioinformatics information-extraction awesome-list biomedical medical-informatics biomedical-data biomedical-language
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May 26, 2026
Towards Generalist Biomedical AI
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Feb 17, 2024 - Python
Visual Med-Alpaca is an open-source, multi-modal foundation model designed specifically for the biomedical domain, built on the LLaMa-7B.
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Mar 11, 2024 - Python
For scientific volumetric data visualization in Blender.
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Aug 15, 2026 - Python
A unifying framework for biomedical research knowledge graphs
bioinformatics framework sql neo4j rdf postgresql ontology knowledge-graph biomedical rdfs ai-ready retrieval-augmented-generation biochatter
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Sep 29, 2026 - Python
[ICLR 2024] Mol-Instructions: A Large-Scale Biomolecular Instruction Dataset for Large Language Models
science natural-language-processing resource instructions molecule dataset protein generation llama datasets biomedical instruction instruction-following large-language-models ai-for-science mol-instruction iclr2024
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Oct 28, 2024 - Python
JEPA-Anything: Learning Predictive Models across Different Worlds
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Sep 18, 2026 - Python
SleepEEGNet: Automated Sleep Stage Scoring with Sequence to Sequence Deep Learning Approach
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Aug 27, 2021 - Python
A curated collection of AI agent skills for biomedical research, covering genomics, proteomics, single-cell analysis, clinical AI, and protein design.
awesome bioinformatics genomics skills mcp computational-biology drug-discovery awesome-list proteomics transcriptomics single-cell biomedical protein-design ai-agents claude ai-agent llm agent-skills claude-code claude-skills
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Jul 1, 2026 - Python
BioGrakn Knowledge Graph
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Jan 15, 2021
MrBiomics: Composable modules and recipes automate bioinformatics for multi-omics analyses
python science recipes data-science automation bioinformatics snakemake framework r research modules genomics genetics next-generation-sequencing epigenetics workflows biomedical
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Aug 3, 2026 - R
[CVPR 2023 (Highlight)] Offical implementation of the paper "RepMode: Learning to Re-parameterize Diverse Experts for Subcellular Structure Prediction".
machine-learning computer-vision deep-learning biomedical multi-task-learning dense-prediction cvpr2023
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Oct 12, 2023 - Python
(NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality Microscopy"
pytorch biomedical multi-resolution cell-segmentation instance-segmentation cell-biology pytorch-implementation multi-modality pytorch-segmentation monai vision-transformer neurips-2022 miscroscopy
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Apr 1, 2024 - Python
Search PubMed/Europe PMC, fetch articles and full text (PMC/EPMC/Unpaywall), citations, MeSH terms via MCP. STDIO or Streamable HTTP.
bioinformatics typescript mcp pubmed citations open-access mesh full-text ncbi biomedical ai-agents europe-pmc unpaywall ai-tools pubmed-api model-context-protocol mcp-server e-utilities cyanheads
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Oct 4, 2026 - TypeScript
Healthcare and biomedical datasets, for AI/ML
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Oct 7, 2026
A modern multimodal knowledge graph with type-specific metadata across biomedical domains.
python neo4j ontology knowledge-graph biomedical multimodal-data heterogeneous-graphs multimodal-ai graph-ai
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Sep 21, 2026 - Python
SCIRun is a Problem Solving Environment, for modeling, simulation and visualization of scientific problems. This is version 5, the upgraded version of SCIRun v4.
visualization python open-source c-plus-plus cmake qt5 boost-libraries scientific-visualization scientific-computing mesh-generation linear-systems scientific-computations dataflow-programming inverse-problems forward-problem biomedical qt6
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Oct 7, 2026 - C++
Recognize bio-medical entities from a text corpus
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Aug 11, 2023 - Python
Full abstract relation extraction from biological texts with bi-affine relation attention networks
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Jan 25, 2019 - Python
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