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A directory of tools, AI models, datasets, and research resources for biotech, bioinformatics, and other scientific fields. Aggregated from curated GitHub awesome-lists, HuggingFace, bio.tools, Bioconductor, and more.
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Unsloth Dynamic 2.0 achieves superior accuracy & outperforms other leading quants.
PII Detection Model | 44M Parameters | Open Source
PII Detection Model | 434M Parameters | Open Source
This is a MobileViT (Small) model fine-tuned on the Processed Diabetic Retinopathy dataset.
> [!NOTE] > Inspired by the thought of: what if you could speak to an offline medical assistant that doesn't decline to answer some of your questions?
microsoft/MediPhi-Guidelines
by microsoftThe MediPhi Model Collection comprises 7 small language models of 3.8B parameters from the base model Phi-3.5-mini-instruct specialized in the medical and clinical domains. The collection is designed in a modular fashion. Five MediPhi experts are fine-tuned on various medical corpora (i.e.
microsoft/MediPhi-Clinical
by microsoftThe MediPhi Model Collection comprises 7 small language models of 3.8B parameters from the base model Phi-3.5-mini-instruct specialized in the medical and clinical domains. The collection is designed in a modular fashion. Five MediPhi experts are fine-tuned on various medical corpora (i.e.
microsoft/MediPhi-PubMed
by microsoftThe MediPhi Model Collection comprises 7 small language models of 3.8B parameters from the base model Phi-3.5-mini-instruct specialized in the medical and clinical domains. The collection is designed in a modular fashion. Five MediPhi experts are fine-tuned on various medical corpora (i.e.
microsoft/MediPhi
by microsoftThe MediPhi Model Collection comprises 7 small language models of 3.8B parameters from the base model Phi-3.5-mini-instruct specialized in the medical and clinical domains. The collection is designed in a modular fashion. Five MediPhi experts are fine-tuned on various medical corpora (i.e.
microsoft/MediPhi-Instruct
by microsoftThe MediPhi Model Collection comprises 7 small language models of 3.8B parameters from the base model Phi-3.5-mini-instruct specialized in the medical and clinical domains. The collection is designed in a modular fashion. Five MediPhi experts are fine-tuned on various medical corpora (i.e.
## Description: Geneformer is a foundational transformer model pretrained on a large-scale corpus of single-cell transcriptomes to enable context-specific predictions in settings with limited data in network biology.
## Description: Geneformer is a foundational transformer model pretrained on a large-scale corpus of single-cell transcriptomes to enable context-specific predictions in settings with limited data in network biology. This model version was continually pretrained on ~14 million cancer transcriptomes…
## Description: Geneformer is a foundational transformer model pretrained on a large-scale corpus of single-cell transcriptomes to enable context-specific predictions in settings with limited data in network biology.
## Description: Geneformer is a foundational transformer model pretrained on a large-scale corpus of single-cell transcriptomes to enable context-specific predictions in settings with limited data in network biology.
mradermacher/Biomni-R0-32B-Preview-i1-GGUF
by mradermacherFor a convenient overview and download list, visit our model page for this model.
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ZJU-AI4H/Hulu-Med-4B
by ZJU-AI4HHulu-Med: A Transparent Generalist Model towards Holistic Medical Vision-Language Understanding
Large Language and Vision Assistant for bioMedicine (i.e., “LLaVA-Med”) is a large language and vision model trained using a curriculum learning method for adapting LLaVA to the biomedical domain. It is an open-source release intended for research use only to facilitate reproducibility of the…
microsoft/llava-med-7b-delta
by microsoftThis model was added by Hugging Face staff.
!1
InstaDeepAI/BulkRNABert
by InstaDeepAIBulkRNABert is a transformer-based, encoder-only language model pre-trained on bulk RNA-seq profiles from the TCGA dataset using self-supervised masked language modeling, following the original BERT framework. The model is trained to reconstruct randomly masked gene expression values from their…
ChemFIE-BED is a sentence-transformers based on gbyuvd/chemselfies-base-bertmlm fine-tuned on around (for now) 2 million pairs of valid molecules' SELFIES (Krenn et al. 2020) taken from COCONUTDB (Sorokina et al. 2021) and ChemBL34 (Zdrazil et al. 2023).
vandijklab/C2S-Scale-Gemma-2-27B
by vandijklabGitHub homepage: Cell2Sentence GitHub
This model is a fine-tuned version of google/medgemma-4b-it adapted for binary mammogram classification on the OMAMA 256×256 dataset. The dataset consists of ~154k mammogram image slices (.npz) with metadata JSONs providing labels (NonCancer, Cancer).
mradermacher/Gemma-2-2B-MedicalQA-Assistant-GGUF
by mradermacherFor a convenient overview and download list, visit our model page for this model.
The Nucleotide Transformers are a collection of foundational language models that were pre-trained on DNA sequences from whole-genomes. Compared to other approaches, our models do not only integrate information from single reference genomes, but leverage DNA sequences from over 3,200 diverse human…
DermLIP is a vision-language model for dermatology, trained on the Derm1M dataset—the largest dermatological image-text corpus to date. This model variant (PanDerm-base-w-PubMed-256) utilizes domain-specific pretraining to deliver superior performance compared to other DermLIP variants..
stanfordmimi/MedVAL-4B
by stanfordmimiMedVAL-4B (medical text validator) is a language model fine-tuned to assess AI-generated medical text outputs at near physician-level reliability.
This model is a lightweight model pre-trained on SELFIES (Self-Referencing Embedded Strings) representations of molecules. It is trained on 2.7M unique and valid molecules taken from COCONUTDB and ChemBL34, with 7.3M total generated masked examples.
nvidia/AMPLIFY_350M
by nvidia> [!NOTE] > This model has been optimized using NVIDIA's TransformerEngine > library. Slight numerical differences may be observed between the original model and the optimized > model. For instructions on how to install TransformerEngine, please refer to the > official documentation.
nvidia/AMPLIFY_120M
by nvidia> [!NOTE] > This model has been optimized using NVIDIA's TransformerEngine > library. Slight numerical differences may be observed between the original model and the optimized > model. For instructions on how to install TransformerEngine, please refer to the > official documentation.
Here is the pretrained version of PolyTAO, the first pretrained generative language model for polymer design.
lingshu-medical-mllm/Lingshu-32B
by lingshu-medical-mllmWebsite 🤖 7B Model 🤖 32B Model MedEvalKit Technical Report Lingshu MCP
lingshu-medical-mllm/Lingshu-7B
by lingshu-medical-mllmWebsite 🤖 7B Model 🤖 32B Model MedEvalKit Technical Report Lingshu MCP
The Nucleotide Transformers are a collection of foundational language models that were pre-trained on DNA sequences from whole-genomes. Compared to other approaches, our models do not only integrate information from single reference genomes, but leverage DNA sequences from over 3,200 diverse human…
The Nucleotide Transformers are a collection of foundational language models that were pre-trained on DNA sequences from whole-genomes. Compared to other approaches, our models do not only integrate information from single reference genomes, but leverage DNA sequences from over 3,200 diverse human…
stanfordmimi/RoentGen-v2
by stanfordmimiPalmyra-Med, a powerful LLM designed for healthcare
Neeto-1.0-8b is an openly released biomedical large language model (LLM) created by BYOL Academy to assist learners and practitioners with medical exam study, literature understanding, and structured clinical reasoning.
sagawa/ReactionT5v2-forward
by sagawaThis is a ReactionT5 pre-trained to predict the products of reactions. You can use the demo here.
This is a ReactionT5 pre-trained to predict the reactants of reactions. You can use the demo here.
This repos contains the biomedicine MLLM developed from Qwen2.5-VL-3B-Instruct in our paper: On Domain-Adaptive Post-Training for Multimodal Large Language Models. The correspoding training dataset is in biomed-visual-instructions.
ibm-research/materials.pos-egnn
by ibm-research# Position-based Equivariant Graph Neural Network (pos-egnn) This repository contains PyTorch model for loading and performing inference using the pos-egnn, a foundation model for Chemistry and Materials.
Specialized model for Chemical Entity Recognition - Identifies chemical compounds and substances in biomedical literature