ead.json

{
    "$schema": "https://developer.empaia.org/schema/ead-app-schema-draft-3.json",
    "name": "Glomeruli Segmentation App",
    "name_short": "GloMAP",
    "namespace": "org.empaia.dai.glomeruli_segmentation.v1",
    "description": "Kidney segmentation algorithm for detection and counting of glomeruli in kidney WSI data",
    "classes": {
        "glomerulus": {
            "name": "Glomerulus"
        },
        "anomaly": {
            "name": "Possible anomaly"
        }
    },
    "inputs": {
        "slide": {
            "type": "wsi"
        },
        "region_of_interest": {
            "type": "rectangle",
            "reference": "inputs.slide",
            "classes": [
                "org.empaia.global.v1.classes.roi"
            ]

        }
    },
    "outputs": {
        "glomeruli_segmentation": {
            "type": "collection",
            "reference": "inputs.region_of_interest",
            "items": {
                "type": "polygon",
                "reference": "inputs.slide"
            }
        },
        "glomeruli_segmentation_confidences": {
            "type": "collection",
            "items": {
                "type": "float",
                "reference": "outputs.glomeruli_segmentation.items"
            }
        },
        "glomeruli_segmentation_classifications": {
            "type": "collection",
            "items" : {
                "type": "class",
                "reference": "outputs.glomeruli_segmentation.items"
            }
        },
        "glomeruli_segmentation_count": {
            "type": "integer",
            "reference": "inputs.region_of_interest"
        }
    }
}