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Workflow

Input Directory Structure
(see Input Files for details)
Pipeline DiagramOutput Directory Structure
(see Output Files for details)
INPUT_DIR
├── config.yml
├── csv/
├── markers.csv/
├── mask/
├── seg/
└── tif/
CyLinterOUTPUT_DIR
├── area/
├── checkpoints/
├── clustering/
├── contrast/
├── cycles/
├── intensity/
├── metaQC/
├── PCA/
├── pruning/
└── ROIs/

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