Affinity based segmentation algorithms:
From conda:
conda install -c conda-forge affogato
From source:
- create conda environment with the necessary dependencies:
conda create -n mws -c conda-forge xtensor-python
- activate the env:
source activate mws
- clone this repository, enter it and build the repository via cmake:
git clone https://github.com/constantinpape/affogato
cd affogato
mkdir -p build && cd build
cmake -DCMAKE_PREFIX_PATH=/path/to/conda/env ..
make
You can follow along with this colab tutorial The example data is available here.
The demo for the interactive mutex watershed can be run with example/interactive/interactive_napari.py. Exapme data is available here.