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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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3 of 5,893 resources
Toolkit for large-scale whole-slide image processing supporting 22+ patch encoders (UNI, CONCH, Virchow, H-Optimus-0, etc.), slide encoders (TITAN, GigaPath, PRISM, CHIEF, Madeleine, Feather), tissue segmentation, and multi-GPU inference with end-to-end pipeline and smart resume for standardized deployment of computational pathology foundation models (Mahmood Lab, Harvard Medical School, 553+ stars)
Dataset and benchmarking framework integrating histology and spatial transcriptomics, enabling multimodal analysis of whole-slide images with matched spatial gene expression for advancing computational pathology and tissue microenvironment research (Mahmood Lab, Harvard Medical School, 411+ stars)
First vision-and-language foundation model for pathology AI, fine-tuned from CLIP on 249K image-caption pairs, enabling open-ended visual-semantic search and zero-shot diagnosis across histopathology (Pathology Foundation, 376+ stars)