Evaluation

ID
d905dd9d-bb59-46d0-a746-52d9ee2e725a
Submission ID
aee77a62-99aa-4c64-9982-45767e69acfe
Method ID
dc854b14-ba0a-43df-af86-bc99177f9066
Status
Succeeded
User
User Mugshot NiTo 
Challenge
PUMA
Phase
Track 2: Preliminary test phase
Algorithm
Track2Puma (Image Version adacaecb-f3fe-4d6b-99e4-4899a768464a )
Submission created
March 15, 2025, 7:34 p.m.
Result created
March 15, 2025, 7:34 p.m.
Position on leaderboard
5
Comment:
PUMA_Track2

Metrics

{
  "results": [
    {
      "filename": "preliminary_test_set_metastatic_roi_001.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.553721406623421
        },
        "micro": {
          "recall": 0.725752508361204,
          "f1_score": 0.7587412587412586,
          "precision": 0.7948717948717948
        },
        "nuclei_tumor": {
          "FN": 33,
          "FP": 39,
          "TP": 166,
          "recall": 0.8341708542713567,
          "f1_score": 0.8217821782178217,
          "precision": 0.8097560975609757
        },
        "nuclei_stroma": {
          "FN": 0,
          "FP": 3,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_lymphocyte": {
          "FN": 2,
          "FP": 2,
          "TP": 8,
          "recall": 0.8,
          "f1_score": 0.8000000000000002,
          "precision": 0.8
        },
        "nuclei_melanophage": {
          "FN": 47,
          "FP": 12,
          "TP": 43,
          "recall": 0.4777777777777778,
          "f1_score": 0.5931034482758621,
          "precision": 0.7818181818181819
        }
      },
      "tissue_metrics": {
        "average_dice": 0.799982270837019,
        "tissue_tumor": 0.9999113004216572,
        "tissue_stroma": 1.0,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 5.376343796970764e-08
      }
    },
    {
      "filename": "preliminary_test_set_metastatic_roi_002.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.24115826407225638
        },
        "micro": {
          "recall": 0.7634920634920634,
          "f1_score": 0.8030050083472454,
          "precision": 0.846830985915493
        },
        "nuclei_tumor": {
          "FN": 38,
          "FP": 26,
          "TP": 177,
          "recall": 0.8232558139534883,
          "f1_score": 0.8468899521531101,
          "precision": 0.8719211822660099
        },
        "nuclei_stroma": {
          "FN": 10,
          "FP": 2,
          "TP": 1,
          "recall": 0.09090909090909091,
          "f1_score": 0.14285714285714288,
          "precision": 0.3333333333333333
        },
        "nuclei_apoptosis": {
          "FN": 1,
          "FP": 3,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_histiocyte": {
          "FN": 14,
          "FP": 23,
          "TP": 2,
          "recall": 0.125,
          "f1_score": 0.09756097560975609,
          "precision": 0.08
        },
        "nuclei_lymphocyte": {
          "FN": 86,
          "FP": 27,
          "TP": 301,
          "recall": 0.7777777777777778,
          "f1_score": 0.8419580419580419,
          "precision": 0.9176829268292683
        },
        "nuclei_neutrophil": {
          "FN": 0,
          "FP": 3,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_endothelium": {
          "FN": 0,
          "FP": 1,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_plasma_cell": {
          "FN": 0,
          "FP": 2,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        }
      },
      "tissue_metrics": {
        "average_dice": 0.9724720861984195,
        "tissue_tumor": 0.9586970769256642,
        "tissue_stroma": 0.9036633540664333,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 1.0
      }
    },
    {
      "filename": "preliminary_test_set_metastatic_roi_003.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.30963066202090594
        },
        "micro": {
          "recall": 0.8447098976109215,
          "f1_score": 0.8549222797927462,
          "precision": 0.8653846153846154
        },
        "nuclei_tumor": {
          "FN": 42,
          "FP": 62,
          "TP": 481,
          "recall": 0.9196940726577438,
          "f1_score": 0.902439024390244,
          "precision": 0.8858195211786372
        },
        "nuclei_stroma": {
          "FN": 32,
          "FP": 0,
          "TP": 9,
          "recall": 0.21951219512195122,
          "f1_score": 0.36,
          "precision": 1.0
        },
        "nuclei_apoptosis": {
          "FN": 0,
          "FP": 6,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_lymphocyte": {
          "FN": 17,
          "FP": 8,
          "TP": 5,
          "recall": 0.22727272727272727,
          "f1_score": 0.2857142857142857,
          "precision": 0.38461538461538464
        },
        "nuclei_plasma_cell": {
          "FN": 0,
          "FP": 1,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        }
      },
      "tissue_metrics": {
        "average_dice": 0.9761196157163002,
        "tissue_tumor": 0.9977205963491735,
        "tissue_stroma": 1.0,
        "tissue_necrosis": 0.8828774822323273,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 1.0
      }
    },
    {
      "filename": "preliminary_test_set_metastatic_roi_004.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.5174431592238365
        },
        "micro": {
          "recall": 0.6873661670235546,
          "f1_score": 0.6888412017167382,
          "precision": 0.6903225806451613
        },
        "nuclei_tumor": {
          "FN": 14,
          "FP": 33,
          "TP": 103,
          "recall": 0.8803418803418803,
          "f1_score": 0.8142292490118577,
          "precision": 0.7573529411764706
        },
        "nuclei_stroma": {
          "FN": 12,
          "FP": 9,
          "TP": 14,
          "recall": 0.5384615384615384,
          "f1_score": 0.5714285714285715,
          "precision": 0.6086956521739131
        },
        "nuclei_apoptosis": {
          "FN": 4,
          "FP": 3,
          "TP": 2,
          "recall": 0.3333333333333333,
          "f1_score": 0.3636363636363636,
          "precision": 0.4
        },
        "nuclei_histiocyte": {
          "FN": 8,
          "FP": 26,
          "TP": 10,
          "recall": 0.5555555555555556,
          "f1_score": 0.3703703703703704,
          "precision": 0.2777777777777778
        },
        "nuclei_lymphocyte": {
          "FN": 37,
          "FP": 69,
          "TP": 182,
          "recall": 0.8310502283105022,
          "f1_score": 0.7744680851063831,
          "precision": 0.7250996015936255
        },
        "nuclei_plasma_cell": {
          "FN": 71,
          "FP": 4,
          "TP": 10,
          "recall": 0.12345679012345678,
          "f1_score": 0.21052631578947367,
          "precision": 0.7142857142857143
        }
      },
      "tissue_metrics": {
        "average_dice": 0.981327016323803,
        "tissue_tumor": 0.9535394723233533,
        "tissue_stroma": 0.9530956092956618,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 1.0
      }
    },
    {
      "filename": "preliminary_test_set_metastatic_roi_005.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.4107850704241652
        },
        "micro": {
          "recall": 0.6637426900584795,
          "f1_score": 0.6973886328725039,
          "precision": 0.7346278317152104
        },
        "nuclei_tumor": {
          "FN": 11,
          "FP": 11,
          "TP": 76,
          "recall": 0.8735632183908046,
          "f1_score": 0.8735632183908046,
          "precision": 0.8735632183908046
        },
        "nuclei_stroma": {
          "FN": 2,
          "FP": 20,
          "TP": 6,
          "recall": 0.75,
          "f1_score": 0.3529411764705882,
          "precision": 0.23076923076923078
        },
        "nuclei_apoptosis": {
          "FN": 2,
          "FP": 2,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_histiocyte": {
          "FN": 55,
          "FP": 19,
          "TP": 61,
          "recall": 0.5258620689655172,
          "f1_score": 0.6224489795918368,
          "precision": 0.7625
        },
        "nuclei_lymphocyte": {
          "FN": 40,
          "FP": 17,
          "TP": 80,
          "recall": 0.6666666666666666,
          "f1_score": 0.7373271889400921,
          "precision": 0.8247422680412371
        },
        "nuclei_neutrophil": {
          "FN": 0,
          "FP": 1,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_melanophage": {
          "FN": 3,
          "FP": 11,
          "TP": 3,
          "recall": 0.5,
          "f1_score": 0.3,
          "precision": 0.21428571428571427
        },
        "nuclei_plasma_cell": {
          "FN": 2,
          "FP": 1,
          "TP": 1,
          "recall": 0.3333333333333333,
          "f1_score": 0.4,
          "precision": 0.5
        }
      },
      "tissue_metrics": {
        "average_dice": 0.767699070102453,
        "tissue_tumor": 0.9466477018238847,
        "tissue_stroma": 0.8918476483957772,
        "tissue_necrosis": 2.926029961690651e-10,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 1.0
      }
    },
    {
      "filename": "preliminary_test_set_primary_roi_001.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.24453029570439738
        },
        "micro": {
          "recall": 0.6145833333333334,
          "f1_score": 0.6399132321041214,
          "precision": 0.667420814479638
        },
        "nuclei_tumor": {
          "FN": 150,
          "FP": 20,
          "TP": 171,
          "recall": 0.5327102803738317,
          "f1_score": 0.66796875,
          "precision": 0.8952879581151832
        },
        "nuclei_stroma": {
          "FN": 0,
          "FP": 6,
          "TP": 3,
          "recall": 1.0,
          "f1_score": 0.5,
          "precision": 0.3333333333333333
        },
        "nuclei_apoptosis": {
          "FN": 1,
          "FP": 0,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0
        },
        "nuclei_histiocyte": {
          "FN": 0,
          "FP": 83,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_lymphocyte": {
          "FN": 34,
          "FP": 31,
          "TP": 121,
          "recall": 0.7806451612903226,
          "f1_score": 0.7882736156351791,
          "precision": 0.7960526315789473
        },
        "nuclei_neutrophil": {
          "FN": 0,
          "FP": 1,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_endothelium": {
          "FN": 0,
          "FP": 5,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_plasma_cell": {
          "FN": 0,
          "FP": 1,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        }
      },
      "tissue_metrics": {
        "average_dice": 0.6676654997216753,
        "tissue_tumor": 0.7360175513388931,
        "tissue_stroma": 2.2990989830556613e-11,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 0.6023099472464921
      }
    },
    {
      "filename": "preliminary_test_set_primary_roi_002.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.31728284398923373
        },
        "micro": {
          "recall": 0.6472972972972973,
          "f1_score": 0.7159940209267565,
          "precision": 0.8010033444816054
        },
        "nuclei_tumor": {
          "FN": 61,
          "FP": 13,
          "TP": 182,
          "recall": 0.7489711934156379,
          "f1_score": 0.8310502283105022,
          "precision": 0.9333333333333333
        },
        "nuclei_stroma": {
          "FN": 5,
          "FP": 24,
          "TP": 7,
          "recall": 0.5833333333333334,
          "f1_score": 0.3255813953488372,
          "precision": 0.22580645161290322
        },
        "nuclei_apoptosis": {
          "FN": 4,
          "FP": 0,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0
        },
        "nuclei_histiocyte": {
          "FN": 23,
          "FP": 63,
          "TP": 20,
          "recall": 0.46511627906976744,
          "f1_score": 0.31746031746031744,
          "precision": 0.24096385542168675
        },
        "nuclei_lymphocyte": {
          "FN": 166,
          "FP": 17,
          "TP": 270,
          "recall": 0.6192660550458715,
          "f1_score": 0.7468879668049793,
          "precision": 0.9407665505226481
        },
        "nuclei_endothelium": {
          "FN": 2,
          "FP": 1,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_plasma_cell": {
          "FN": 0,
          "FP": 1,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        }
      },
      "tissue_metrics": {
        "average_dice": 0.824338290627284,
        "tissue_tumor": 0.9089307477895772,
        "tissue_stroma": 0.8982255789986863,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 0.314535126348157
      }
    },
    {
      "filename": "preliminary_test_set_primary_roi_003.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.47865604454562805
        },
        "micro": {
          "recall": 0.6852589641434262,
          "f1_score": 0.7056410256410256,
          "precision": 0.7272727272727273
        },
        "nuclei_tumor": {
          "FN": 15,
          "FP": 49,
          "TP": 134,
          "recall": 0.8993288590604027,
          "f1_score": 0.8072289156626506,
          "precision": 0.73224043715847
        },
        "nuclei_stroma": {
          "FN": 11,
          "FP": 15,
          "TP": 3,
          "recall": 0.21428571428571427,
          "f1_score": 0.1875,
          "precision": 0.16666666666666666
        },
        "nuclei_apoptosis": {
          "FN": 2,
          "FP": 0,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0
        },
        "nuclei_histiocyte": {
          "FN": 69,
          "FP": 33,
          "TP": 52,
          "recall": 0.4297520661157025,
          "f1_score": 0.5048543689320389,
          "precision": 0.611764705882353
        },
        "nuclei_lymphocyte": {
          "FN": 55,
          "FP": 27,
          "TP": 149,
          "recall": 0.7303921568627451,
          "f1_score": 0.7842105263157895,
          "precision": 0.8465909090909091
        },
        "nuclei_endothelium": {
          "FN": 2,
          "FP": 0,
          "TP": 1,
          "recall": 0.3333333333333333,
          "f1_score": 0.5,
          "precision": 1.0
        },
        "nuclei_melanophage": {
          "FN": 2,
          "FP": 3,
          "TP": 3,
          "recall": 0.6,
          "f1_score": 0.5454545454545454,
          "precision": 0.5
        },
        "nuclei_plasma_cell": {
          "FN": 2,
          "FP": 2,
          "TP": 2,
          "recall": 0.5,
          "f1_score": 0.5,
          "precision": 0.5
        }
      },
      "tissue_metrics": {
        "average_dice": 0.9122821080316781,
        "tissue_tumor": 0.8316522339493213,
        "tissue_stroma": 0.8692728479327577,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 1.0,
        "tissue_blood_vessel": 0.8604854582763115
      }
    },
    {
      "filename": "preliminary_test_set_primary_roi_004.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.4413822800477081
        },
        "micro": {
          "recall": 0.6339066339066339,
          "f1_score": 0.6649484536082475,
          "precision": 0.6991869918699187
        },
        "nuclei_tumor": {
          "FN": 74,
          "FP": 7,
          "TP": 44,
          "recall": 0.3728813559322034,
          "f1_score": 0.5207100591715977,
          "precision": 0.8627450980392157
        },
        "nuclei_stroma": {
          "FN": 9,
          "FP": 19,
          "TP": 10,
          "recall": 0.5263157894736842,
          "f1_score": 0.4166666666666667,
          "precision": 0.3448275862068966
        },
        "nuclei_epithelium": {
          "FN": 7,
          "FP": 5,
          "TP": 35,
          "recall": 0.8333333333333334,
          "f1_score": 0.8536585365853658,
          "precision": 0.875
        },
        "nuclei_histiocyte": {
          "FN": 25,
          "FP": 66,
          "TP": 34,
          "recall": 0.576271186440678,
          "f1_score": 0.4276729559748428,
          "precision": 0.34
        },
        "nuclei_lymphocyte": {
          "FN": 28,
          "FP": 12,
          "TP": 135,
          "recall": 0.8282208588957055,
          "f1_score": 0.8709677419354839,
          "precision": 0.9183673469387755
        },
        "nuclei_endothelium": {
          "FN": 2,
          "FP": 0,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0
        },
        "nuclei_melanophage": {
          "FN": 4,
          "FP": 2,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0.0
        }
      },
      "tissue_metrics": {
        "average_dice": 0.8258983229885428,
        "tissue_tumor": 0.4513730019300116,
        "tissue_stroma": 0.7758866083784739,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 0.9022320046342288,
        "tissue_blood_vessel": 1.0
      }
    },
    {
      "filename": "preliminary_test_set_primary_roi_005.tif",
      "nuclei_metrics": {
        "macro": {
          "f1_score": 0.47051389195212134
        },
        "micro": {
          "recall": 0.7312072892938497,
          "f1_score": 0.7561837455830389,
          "precision": 0.7829268292682927
        },
        "nuclei_tumor": {
          "FN": 59,
          "FP": 18,
          "TP": 215,
          "recall": 0.7846715328467153,
          "f1_score": 0.8481262327416174,
          "precision": 0.9227467811158798
        },
        "nuclei_stroma": {
          "FN": 2,
          "FP": 5,
          "TP": 3,
          "recall": 0.6,
          "f1_score": 0.4615384615384615,
          "precision": 0.375
        },
        "nuclei_apoptosis": {
          "FN": 4,
          "FP": 1,
          "TP": 2,
          "recall": 0.3333333333333333,
          "f1_score": 0.4444444444444444,
          "precision": 0.6666666666666666
        },
        "nuclei_epithelium": {
          "FN": 0,
          "FP": 8,
          "TP": 0,
          "recall": 0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_histiocyte": {
          "FN": 22,
          "FP": 29,
          "TP": 29,
          "recall": 0.5686274509803921,
          "f1_score": 0.5321100917431193,
          "precision": 0.5
        },
        "nuclei_lymphocyte": {
          "FN": 13,
          "FP": 23,
          "TP": 57,
          "recall": 0.8142857142857143,
          "f1_score": 0.7599999999999999,
          "precision": 0.7125
        },
        "nuclei_neutrophil": {
          "FN": 2,
          "FP": 1,
          "TP": 0,
          "recall": 0.0,
          "f1_score": 0,
          "precision": 0.0
        },
        "nuclei_endothelium": {
          "FN": 6,
          "FP": 3,
          "TP": 9,
          "recall": 0.6,
          "f1_score": 0.6666666666666665,
          "precision": 0.75
        },
        "nuclei_melanophage": {
          "FN": 10,
          "FP": 1,
          "TP": 6,
          "recall": 0.375,
          "f1_score": 0.5217391304347825,
          "precision": 0.8571428571428571
        }
      },
      "tissue_metrics": {
        "average_dice": 0.7053347170695032,
        "tissue_tumor": 0.9362070673773885,
        "tissue_stroma": 0.8991480789202434,
        "tissue_necrosis": 1.0,
        "tissue_epidermis": 2.4999937500156254e-06,
        "tissue_blood_vessel": 0.6913159390561348
      }
    }
  ],
  "aggregates": {
    "f1_nuclei": {
      "nuclei_tumor": 0.7933987808050207,
      "nuclei_stroma": 0.3318513414310268,
      "nuclei_apoptosis": 0.0808080808080808,
      "nuclei_epithelium": 0.08536585365853658,
      "nuclei_histiocyte": 0.28724780596822813,
      "nuclei_lymphocyte": 0.7389807452410235,
      "nuclei_neutrophil": 0.0,
      "nuclei_endothelium": 0.11666666666666665,
      "nuclei_melanophage": 0.196029712416519,
      "nuclei_plasma_cell": 0.11105263157894738
    },
    "dice_tissue": {
      "average_dice": 0.8433118997616678,
      "tissue_tumor": 0.8720696750228925,
      "tissue_stroma": 0.8191139726011025,
      "tissue_necrosis": 0.8882877482524931,
      "tissue_epidermis": 0.8902234504627978,
      "tissue_blood_vessel": 0.7468646524690533
    },
    "macro_f1_nuclei": 0.274140161857405,
    "micro_dice_tissue": {
      "tissue_tumor": 0.9062061140915044,
      "tissue_stroma": 0.8269053019151782,
      "tissue_necrosis": 0.4762905769392286,
      "tissue_epidermis": 0.902219858923112,
      "average_micro_dice": 0.7552524887768866,
      "tissue_blood_vessel": 0.6646405920154098
    }
  }
}