A full spaCy pipeline and models for scientific/biomedical documents.
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Nov 23, 2024 - Python
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biomedical
Here are 272 public repositories matching this topic...
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
🧫 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, 2024
For scientific volumetric data visualization in Blender.
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Apr 14, 2025 - 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
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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Jun 10, 2025 - Python
SleepEEGNet: Automated Sleep Stage Scoring with Sequence to Sequence Deep Learning Approach
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Aug 27, 2021 - Python
BioGrakn Knowledge Graph
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Jan 15, 2021
[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
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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May 9, 2025 - C++
Full abstract relation extraction from biological texts with bi-affine relation attention networks
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Jan 25, 2019 - Python
Workshop (6 hours): Deep learning in R using Keras. Building & training deep nets, image classification, transfer learning, text analysis, visualization
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Apr 9, 2024 - R
Recognize bio-medical entities from a text corpus
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Aug 11, 2023 - Python
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
bioinformatics pipeline best-practices assembly metagenomics microbiome biomedical microbiome-analysis amplicon-sequencing 16s-rrna microbiome-workflow
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May 12, 2024 - Shell
MedType: Improving Medical Entity Linking with Semantic Type Prediction
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Feb 10, 2023 - Python
Named Entity Recognition with Small Strongly Labeled and Large Weakly Labeled Data
weak-supervision ner biomedical bert weakly-supervised-learning distant-supervision biomedical-named-entity-recognition
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Jul 25, 2023 - Python
TypeDB Bio: Biomedical Knowledge Graph
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Jun 2, 2025 - Python
Weakly supervised medical named entity classification
text-classification ontology weak-supervision ner biomedical umls bert weakly-supervised-learning pseudo-labeling learning-with-noisy-labels umls-metathesaurus
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Dec 23, 2022 - Python
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