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A deep learning toolkit for healthcare AI: EHR (MIMIC, eICU, OMOP), clinical text, signals and imaging. 30+ models, reproducible pipelines.

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

  • calcium-imaging
  • deconvolution
  • source-extraction
  • motion-correction

Vision-Language Pathology Foundation Model - Nature Medicine

  • bioimage-analysis
  • bioimage-informatics
  • conch
  • foundation-model

Kaapana is an open source toolkit for state of the art platform provisioning in the field of medical data analysis. The applications comprise AI-based workflows and federated learning scenarios with a focus on radiological and radiotherapeutic imaging. The name Kaapana comes from the Hawaiian word kaʻāpana, meaning "distributor" or "part".

This script is made to collect the most valiable artifacts for foreniscs or incident reponse investigation rather than imaging the whole har drive.

AI-based pathology predicts origins for cancers of unknown primary - Nature

  • histology
  • pathology
  • wsi-images
  • histopathology

ENIGMA HALFpipe is a user-friendly software that facilitates reproducible analysis of fMRI data

  • neuroimaging
  • reproducibility
  • pipeline
  • meta-analysis

An open-source imaging workbench for making and studying SDR and HDR images from sensor data

ZetaStitcher is a tool designed to stitch large volumetric images such as those produced by Light-Sheet Fluorescence Microscopes.

  • stitching
  • microscopy
  • microscopy-images
  • fluorescence-microscopy-imaging