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    115 repositories

    • PathDB

      Public
      PHP
      •
      BSD 3-Clause "New" or "Revised" License
      •6•2•1•10•Updated Mar 31, 2026Mar 31, 2026

    • ImageLoader

      Public
      Dockerfile
      •0•0•1•0•Updated Mar 31, 2026Mar 31, 2026

    • SpinPath

      Public
      CLI tool to run specimen-level inference on whole slide images
      digital-pathologywhole-slide-imagingmultiple-instance-learning
      digital-pathologywhole-slide-imagingmultiple-instance-learninghistopathology
      Python
      •
      Apache License 2.0
      •1•7•0•1•Updated Jan 13, 2025Jan 13, 2025

    • hatch

      Public
      Java
      •
      GNU General Public License v2.0
      •2•1•0•0•Updated Nov 5, 2024Nov 5, 2024

    • wsinfer

      Public
      🔥 🚀 Blazingly fast pipeline for patch-based classification in whole slide images
      deep-learningpytorchclassification
      deep-learningpytorchclassificationpathologywhole-slide-imaging
      Python
      •
      Apache License 2.0
      •14•86•14•0•Updated Jul 11, 2024Jul 11, 2024

    • wsinfer-zoo

      Public
      Model zoo for WSInfer
      Python
      •
      Apache License 2.0
      •0•2•1•0•Updated Jul 9, 2024Jul 9, 2024

    • quip_distro

      Public
      visualizationdatabaseanalysis
      visualizationdatabaseanalysisdocker-imageslide-tissue-images
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •16•32•6•3•Updated May 2, 2024May 2, 2024

    • MappingOHDSI2HDF5

      Public
      Build JSON mappings for mapping OHDSI tables to HDF5
      Jupyter Notebook
      •3•6•0•0•Updated Oct 23, 2023Oct 23, 2023

    • region-templates

      Public
      Region Templates development
      C++
      •5•4•0•1•Updated Oct 11, 2023Oct 11, 2023

    • til_align

      Public
      TIL Alignment
      R
      •
      Apache License 2.0
      •1•0•1•0•Updated Aug 6, 2023Aug 6, 2023

    • champkit

      Public
      Benchmarking toolkit for patch-based histopathology image classification.
      benchmarkingbenchmarkdeep-learning
      benchmarkingbenchmarkdeep-learningpytorchimage-classificationhistopathology
      Python
      •
      Apache License 2.0
      •5•44•3•0•Updated Jun 2, 2023Jun 2, 2023

    • uploadHeatmaps

      Public
      Shell
      •4•0•1•0•Updated May 25, 2023May 25, 2023

    • SegmentationLoader

      Public
      Load WSI segmentations to mongodb instance
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•1•0•Updated May 25, 2023May 25, 2023

    • tumor-til-survival-analysis

      Public
      Scripts to run analysis of tumor/TILs.
      Shell
      •
      Apache License 2.0
      •0•2•6•0•Updated May 22, 2023May 22, 2023

    • quip_cnn_segmentation

      Public
      CNN based segmentation codes
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •17•48•4•3•Updated Jan 19, 2023Jan 19, 2023

    • QuIPImageFetch

      Public
      Python
      •0•2•0•0•Updated Jan 12, 2023Jan 12, 2023

    • quip_paad_cancer_detection

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •8•8•2•2•Updated Aug 8, 2022Aug 8, 2022

    • quip_prad_cancer_detection

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•3•0•0•Updated Aug 8, 2022Aug 8, 2022

    • quip_lung_cancer_detection

      Public
      Python
      •
      GNU General Public License v3.0
      •3•1•0•0•Updated Aug 8, 2022Aug 8, 2022

    • quip_cancer_segmentation

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•17•1•0•Updated Aug 8, 2022Aug 8, 2022

    • quip_classification

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •11•5•3•1•Updated Jul 17, 2022Jul 17, 2022

    • deep_survival_analysis

      Public
      Survival analysis with deep learning
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•4•1•0•Updated May 18, 2022May 18, 2022

    • generate_heatmap_pannels

      Public
      1•0•0•0•Updated May 3, 2022May 3, 2022

    • til_classification

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5•2•0•0•Updated Feb 19, 2022Feb 19, 2022

    • manifest_util

      Public
      manifest file generator
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Nov 5, 2021Nov 5, 2021

    • quip_converter

      Public
      Convert vendor format to tiled, multires tiff format
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Aug 2, 2021Aug 2, 2021

    • nscale

      Public
      Libraries of high performance analysis methods
      C++
      •7•6•0•0•Updated Jun 16, 2021Jun 16, 2021

    • quip_reports

      Public
      Report generator
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Mar 2, 2021Mar 2, 2021

    • u24_lymphocyte

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •20•32•5•0•Updated Jan 22, 2021Jan 22, 2021

    • featuremap_util

      Public
      Transform raw data to featuremaps
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Jan 8, 2021Jan 8, 2021
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