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1. ilastik/ilastik ilastik/ilastik Public

   ilastik-shell, applets, and workflows to string them together.

   Python 419 196

2. BodenmillerGroup/imctools BodenmillerGroup/imctools Public archive

   Tools to handle IMC data

   Python 26 16

3. BodenmillerGroup/ImcSegmentationSnakemake BodenmillerGroup/ImcSegmentationSnakemake Public template

   The repository for the Snakemake implementation of the ImcSegmentationPipeline

   Python 4 2

4. BodenmillerGroup/neighbouRhood BodenmillerGroup/neighbouRhood Public archive

   Adds an R implementation for the HistoCAT neightbourhood analysis that runs from CellProfiler output.

   R 7 4

5. BodenmillerGroup/SpheroidPublication BodenmillerGroup/SpheroidPublication Public

   This contains the workflows to reproduce all analyses from the Spheroid paper.

   Makefile 2

6. CellProfiler/CellProfiler CellProfiler/CellProfiler Public

   An open-source application for biological image analysis

   Python 1.1k 429