Repositories list

• wsinfer-mil

  Public
  CLI tool to run specimen-level inference on whole slide images

  digital-pathologywhole-slide-imagingmultiple-instance-learning+ 1histopathology

  Python

  •

  Apache License 2.0

  •0•1•0•0•Updated Nov 30, 2024Nov 30, 2024

• hatch

  Public
  Java

  •

  GNU General Public License v2.0

  •2•1•0•0•Updated Nov 5, 2024Nov 5, 2024

• PathDB

  Public
  PHP

  •

  BSD 3-Clause "New" or "Revised" License

  •5•2•1•11•Updated Jul 24, 2024Jul 24, 2024

• wsinfer

  Public
  🔥 🚀 Blazingly fast pipeline for patch-based classification in whole slide images

  deep-learningpytorchclassification+ 2pathologywhole-slide-imaging

  Python

  •

  Apache License 2.0

  •12•63•13•0•Updated Jul 11, 2024Jul 11, 2024

• wsinfer-zoo

  Public
  Model zoo for WSInfer

  Python

  •

  Apache License 2.0

  •0•1•1•0•Updated Jul 9, 2024Jul 9, 2024

• quip_distro

  Public
  visualizationdatabaseanalysis+ 2docker-imageslide-tissue-images

  JavaScript

  •

  BSD 3-Clause "New" or "Revised" License

  •16•31•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+ 3pytorchimage-classificationhistopathology

  Python

  •

  Apache License 2.0

  •4•38•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•47•4•3•Updated Jan 19, 2023Jan 19, 2023

• QuIPImageFetch

  Public
  Python

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

• ImageLoader

  Public
  Dockerfile

  •0•0•1•0•Updated Sep 20, 2022Sep 20, 2022

• 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•15•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

  •1•3•1•0•Updated May 18, 2022May 18, 2022

• generate_heatmap_pannels

  Public
  2•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•30•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