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OpenGCA: Gut Cell Atlas Code Repository

open-source code and model sharing platform for Gut Cell Atlas

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Diagnosis, MxIF, Omics, SingleCell

Tangram: Influence of cell-type ratio on spatially resolved single-cell transcriptomes using the Tangram algorithm: based on implementation on single-cell and MxIF data

by Yuankai Huo Posted on November 10, 2023November 13, 2023

This is the official implementation of Influence of cell-type ratio on spatially resolved single-cell transcriptomes […]

AI Deep Learning, Foundation Model, H&E, Segmentation

SAM: Segment anything model (SAM) for digital pathology: Assess zero-shot segmentation on whole slide imaging

by Yuankai Huo Posted on November 10, 2023November 13, 2023

This is the official implementation of Segment anything model (SAM) for digital pathology: Assess zero-shot […]

AI Deep Learning, Anomaly Detection, Diagnosis, H&E

UAD: feasibility of universal anomaly detection without kKnowing the abnormality in medical images

by Yuankai Huo Posted on November 10, 2023November 13, 2023

This is the official implementation of Feasibility of Universal Anomaly Detection Without Knowing the Abnormality […]

AI Deep Learning, Diagnosis, H&E

CSMIL: cross-scale multi-instance learning for pathological image diagnosis

by Yuankai Huo Posted on November 9, 2023November 13, 2023

This is the official implementation of Cross-scale Attention Guided Multi-instance Learning for Crohn’s Disease Diagnosis […]

AI Deep Learning, H&E, Segmentation

Omni-Seg: a scale-aware dynamic network for pathological image segmentation

by Yuankai Huo Posted on November 9, 2023November 13, 2023

This is the official implementation of Omni-Seg: A Scale-aware Dynamic Network for Pathological Image Segmentation. […]

Recent Code and Models

  • cellNN: Unveiling Local CellArrangement Pattern with Graph-based Signatures to Perform Cell Spatial Analysis in Crohn’s Disease November 12, 2023
  • Random-walk: Alleviating tiling effect in high-resolution histological whole slide image synthesis November 12, 2023
  • PixN2N-HD: Image Synthesis for Multiplexed Immunofluorescence Imaging November 12, 2023
  • MemSeg: Topological-Preserving Membrane Skeleton Segmentation in Multiplex Immunofluorescence Imaging November 12, 2023
  • MxIF Q-score: Biology-Informed Quality Assurance for Multiplexed Immunofluorescence Imaging November 12, 2023
  • GCA-informatics: A cross-platform informatics system for the Gut Cell Atlas: integrating clinical, anatomical and histological data November 12, 2023
  • CoNIC: Nucleus subtype classification using inter-modality learning November 12, 2023
  • GDL: Exploring shared memory architectures for end-to-end gigapixel deep learning November 12, 2023
  • Tangram: Influence of cell-type ratio on spatially resolved single-cell transcriptomes using the Tangram algorithm: based on implementation on single-cell and MxIF data November 10, 2023
  • SAM: Segment anything model (SAM) for digital pathology: Assess zero-shot segmentation on whole slide imaging November 10, 2023
  • UAD: feasibility of universal anomaly detection without kKnowing the abnormality in medical images November 10, 2023
  • CSMIL: cross-scale multi-instance learning for pathological image diagnosis November 9, 2023
  • Omni-Seg: a scale-aware dynamic network for pathological image segmentation November 9, 2023

Categories

  • AI Deep Learning
  • Annotation
  • Anomaly Detection
  • Big Data
  • Diagnosis
  • Foundation Model
  • H&E
  • Informatics
  • MxIF
  • Omics
  • Pattern Recognition
  • Segmentation
  • SingleCell
  • Spatial analysis
  • Synthesis

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This website is the open-source code and model sharing platform for Gut Cell Atlas (GCA)

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