cellquant / reports /final /final_fit.json
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{ "post_config": { "cell_fg_thr": 0.5, "marker_thr": 0.5, "min_marker_area": 12, "min_cell_area": 50, "min_peak_dist": 0.64, "nos_fg_thr": 0.5, "min_nos_area": 3, "antibody_thr": 0.5, "cellnos_thr": 0.5, "nostril_rule": "head", "cellnos_rule": "contains" }, "C100": { "cells": { "detection": { "tp": 171, "fp": 14, "fn": 7, "precision": 0.9243243243243243, "recall": 0.9606741573033708, "f1": 0.9421487603305785, "mean_iou_matched": 0.7972938750523493, "iou30": { "tp": 175, "fp": 10, "fn": 3, "precision": 0.9459459459459459, "recall": 0.9831460674157303, "f1": 0.9641873278236914 }, "centroid": { "tp": 175, "fp": 10, "fn": 3, "precision": 0.9459459459459459, "recall": 0.9831460674157303, "f1": 0.9641873278236914 } }, "attribute_accuracy": { "antibody": 0.9941520467836257, "nostril": 0.9941520467836257, "both": 0.9883040935672515, "n_matched": 171 }, "per_class": { "Cell, Antibody +": { "tp": 157, "fp": 13, "fn": 8, "precision": 0.9235294117647059, "recall": 0.9515151515151515, "f1": 0.9373134328358209, "gt_count": 165, "pred_count": 170 }, "Cell, Antibody -": { "tp": 0, "fp": 3, "fn": 0, "precision": 0.0, "recall": 0.0, "f1": 0.0, "gt_count": 0, "pred_count": 3 }, "Cell, Nostril, Antibody +": { "tp": 12, "fp": 0, "fn": 1, "precision": 1.0, "recall": 0.9230769230769231, "f1": 0.9600000000000001, "gt_count": 13, "pred_count": 12 }, "Cell, Nostril, Antibody -": { "tp": 0, "fp": 0, "fn": 0, "precision": 0.0, "recall": 0.0, "f1": 0.0, "gt_count": 0, "pred_count": 0 } }, "confusion": { "Cell, Antibody +": { "Cell, Antibody +": 157, "Cell, Antibody -": 1, "Cell, Nostril, Antibody +": 0, "Cell, Nostril, Antibody -": 0 }, "Cell, Antibody -": { "Cell, Antibody +": 0, "Cell, Antibody -": 0, "Cell, Nostril, Antibody +": 0, "Cell, Nostril, Antibody -": 0 }, "Cell, Nostril, Antibody +": { "Cell, Antibody +": 1, "Cell, Antibody -": 0, "Cell, Nostril, Antibody +": 12, "Cell, Nostril, Antibody -": 0 }, "Cell, Nostril, Antibody -": { "Cell, Antibody +": 0, "Cell, Antibody -": 0, "Cell, Nostril, Antibody +": 0, "Cell, Nostril, Antibody -": 0 } }, "n_gt": 178, "n_pred": 185 }, "nostrils": { "detection": { "tp": 16, "fp": 4, "fn": 4, "precision": 0.8, "recall": 0.8, "f1": 0.8000000000000002, "mean_dist_matched": 1.1705934762183428 }, "type_accuracy": 1.0, "per_class": { "Nostril in Nucleus": { "tp": 12, "fp": 1, "fn": 2, "precision": 0.9230769230769231, "recall": 0.8571428571428571, "f1": 0.888888888888889, "gt_count": 14, "pred_count": 13 }, "Nostril External of Nucleus": { "tp": 4, "fp": 3, "fn": 2, "precision": 0.5714285714285714, "recall": 0.6666666666666666, "f1": 0.6153846153846153, "gt_count": 6, "pred_count": 7 } }, "n_gt": 20, "n_pred": 20 }, "counts": { "Cell, Antibody +": { "gt": 165, "pred": 170, "abs_err": 5, "rel_err": 0.030303030303030304 }, "Cell, Antibody -": { "gt": 0, "pred": 3, "abs_err": 3, "rel_err": Infinity }, "Cell, Nostril, Antibody +": { "gt": 13, "pred": 12, "abs_err": 1, "rel_err": 0.07692307692307693 }, "Cell, Nostril, Antibody -": { "gt": 0, "pred": 0, "abs_err": 0, "rel_err": 0.0 }, "Nostril in Nucleus": { "gt": 14, "pred": 13, "abs_err": 1, "rel_err": 0.07142857142857142 }, "Nostril External of Nucleus": { "gt": 6, "pred": 7, "abs_err": 1, "rel_err": 0.16666666666666666 } }, "fp_analysis": null, "pairs": null, "summary": { "cell_det_f1": 0.9421487603305785, "cell_det_precision": 0.9243243243243243, "cell_det_recall": 0.9606741573033708, "cell_mean_iou": 0.7972938750523493, "cell_det_f1_iou30": 0.9641873278236914, "cell_det_f1_centroid": 0.9641873278236914, "cell_attr_antibody": 0.9941520467836257, "cell_attr_nostril": 0.9941520467836257, "cell_attr_both": 0.9883040935672515, "nos_det_f1": 0.8000000000000002, "nos_det_precision": 0.8, "nos_det_recall": 0.8, "nos_type_acc": 1.0, "f1[Cell, Antibody +]": 0.9373134328358209, "f1[Cell, Antibody -]": 0.0, "f1[Cell, Nostril, Antibody +]": 0.9600000000000001, "f1[Cell, Nostril, Antibody -]": 0.0, "f1[Nostril in Nucleus]": 0.888888888888889, "f1[Nostril External of Nucleus]": 0.6153846153846153 } }, "C102": { "cells": { "detection": { "tp": 91, "fp": 10, "fn": 0, "precision": 0.900990099009901, "recall": 1.0, "f1": 0.9479166666666667, "mean_iou_matched": 0.8036863197012898, "iou30": { "tp": 91, "fp": 10, "fn": 0, "precision": 0.900990099009901, "recall": 1.0, "f1": 0.9479166666666667 }, "centroid": { "tp": 91, "fp": 10, "fn": 0, "precision": 0.900990099009901, "recall": 1.0, "f1": 0.9479166666666667 } }, "attribute_accuracy": { "antibody": 1.0, "nostril": 0.945054945054945, "both": 0.945054945054945, "n_matched": 91 }, "per_class": { "Cell, Antibody +": { "tp": 41, "fp": 13, "fn": 0, "precision": 0.7592592592592593, "recall": 1.0, "f1": 0.8631578947368421, "gt_count": 41, "pred_count": 54 }, "Cell, Antibody -": { "tp": 0, "fp": 0, "fn": 0, "precision": 0.0, "recall": 0.0, "f1": 0.0, "gt_count": 0, "pred_count": 0 }, "Cell, Nostril, Antibody +": { "tp": 45, "fp": 2, "fn": 5, "precision": 0.9574468085106383, "recall": 0.9, "f1": 0.9278350515463918, 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"cell_det_f1": 0.9479166666666667, "cell_det_precision": 0.900990099009901, "cell_det_recall": 1.0, "cell_mean_iou": 0.8036863197012898, "cell_det_f1_iou30": 0.9479166666666667, "cell_det_f1_centroid": 0.9479166666666667, "cell_attr_antibody": 1.0, "cell_attr_nostril": 0.945054945054945, "cell_attr_both": 0.945054945054945, "nos_det_f1": 0.7884615384615384, "nos_det_precision": 0.6910112359550562, "nos_det_recall": 0.917910447761194, "nos_type_acc": 0.991869918699187, "f1[Cell, Antibody +]": 0.8631578947368421, "f1[Cell, Antibody -]": 0.0, "f1[Cell, Nostril, Antibody +]": 0.9278350515463918, "f1[Cell, Nostril, Antibody -]": 0.0, "f1[Nostril in Nucleus]": 0.8503937007874016, "f1[Nostril External of Nucleus]": 0.7351351351351352 } }, "C110": { "cells": { "detection": { "tp": 167, "fp": 18, "fn": 17, "precision": 0.9027027027027027, "recall": 0.907608695652174, "f1": 0.9051490514905148, "mean_iou_matched": 0.7834847507494777, "iou30": { "tp": 174, "fp": 11, "fn": 10, "precision": 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"confusion": { "Cell, Antibody +": { "Cell, Antibody +": 52, "Cell, Antibody -": 1, "Cell, Nostril, Antibody +": 2, "Cell, Nostril, Antibody -": 0 }, "Cell, Antibody -": { "Cell, Antibody +": 0, "Cell, Antibody -": 1, "Cell, Nostril, Antibody +": 0, "Cell, Nostril, Antibody -": 0 }, "Cell, Nostril, Antibody +": { "Cell, Antibody +": 3, "Cell, Antibody -": 0, "Cell, Nostril, Antibody +": 108, "Cell, Nostril, Antibody -": 0 }, "Cell, Nostril, Antibody -": { "Cell, Antibody +": 0, "Cell, Antibody -": 0, "Cell, Nostril, Antibody +": 0, "Cell, Nostril, Antibody -": 0 } }, "n_gt": 184, "n_pred": 185 }, "nostrils": { "detection": { "tp": 347, "fp": 104, "fn": 29, "precision": 0.7694013303769401, "recall": 0.9228723404255319, "f1": 0.8391777509068925, "mean_dist_matched": 0.9012807114492273 }, "type_accuracy": 0.9740634005763689, "per_class": { "Nostril in Nucleus": { "tp": 149, "fp": 40, "fn": 20, "precision": 0.7883597883597884, "recall": 0.8816568047337278, "f1": 0.8324022346368716, 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}, "centroid": { "tp": 138, "fp": 18, "fn": 8, "precision": 0.8846153846153846, "recall": 0.9452054794520548, "f1": 0.9139072847682119 } }, "attribute_accuracy": { "antibody": 1.0, "nostril": 0.9921875, "both": 0.9921875, "n_matched": 128 }, "per_class": { "Cell, Antibody +": { "tp": 107, "fp": 24, "fn": 17, "precision": 0.816793893129771, "recall": 0.8629032258064516, "f1": 0.8392156862745098, "gt_count": 124, "pred_count": 131 }, "Cell, Antibody -": { "tp": 5, "fp": 0, "fn": 0, "precision": 1.0, "recall": 1.0, "f1": 1.0, "gt_count": 5, "pred_count": 5 }, "Cell, Nostril, Antibody +": { "tp": 15, "fp": 5, "fn": 2, "precision": 0.75, "recall": 0.8823529411764706, "f1": 0.8108108108108107, "gt_count": 17, "pred_count": 20 }, "Cell, Nostril, Antibody -": { "tp": 0, "fp": 0, "fn": 0, "precision": 0.0, "recall": 0.0, "f1": 0.0, "gt_count": 0, "pred_count": 0 } }, "confusion": { "Cell, Antibody +": { "Cell, Antibody +": 107, "Cell, Antibody -": 0, "Cell, Nostril, Antibody +": 1, "Cell, 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