Upload 5 files

results_Geneformer_metrics.csv

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+"Category	",Task,Prediction type,Cell population,Primary_site/cell type,Accuracy,Precision,Recall,F1 Score
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Overall,0.008,1,0.008,0.017
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lung,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Pancreas,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Colorectal,0.004,1,0.004,0.008
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Cervical ,0.004,1,0.004,0.008
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Kidney,0.008,1,0.008,0.016
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Liver,0.005,1,0.005,0.01
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Ovarian,0.006,1,0.006,0.012
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Esophageal,0.001,1,0.001,0.002
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Gastric,0.005,1,0.005,0.01
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Breast,0.129,1,0.129,0.229
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Head-neck,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Glioma,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lymphoma,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Melanoma,0.001,1,0.001,0.002
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Thyroid,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,DSRCT,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Myeloma,0,0,0,0
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Osteosarcoma,0.001,1,0.001,0.002
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Retinoblastoma,0.004,1,0.004,0.008
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Prostate,0.002,1,0.002,0.004
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Seminoma,0.002,1,0.002,0.003
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Overall,0.002,1,0.002,0.005
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Lung,0,0,0,0
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Pancreas,0,0,0,0
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Colorectal,0.004,1,0.004,0.008
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Liver,0.003,1,0.003,0.006
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Ovarian,0.005,1,0.005,0.01
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Gastric,0.004,1,0.004,0.008
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Breast,0.007,1,0.007,0.014
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Head-neck,0,0,0,0
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Melanoma,0,0,0,0
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Thyroid,0,0,0,0
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Overall,0.036,1,0.036,0.069
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Lung,0,0,0,0
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Colorectal,0.412,1,0.412,0.583
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Liver,0,0,0,0
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Breast,0,0,0,0
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Melanoma,0.037,1,0.037,0.071
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Prostate,0.208,1,0.208,0.344
+Tumor,Tumor cell identification,Binary,Normal cells,Overall,0.009,1,0.009,0.018
+Tumor,Tumor cell identification,Binary,Normal cells,B cells,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Myeloid,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,T/NK cells,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Endothelial cells,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Epithelial cells,0.001,1,0.001,0.001
+Tumor,Tumor cell identification,Binary,Normal cells,Fibroblasts,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Mesenchymal cells,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Germ cells,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Neural stem cells,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Glioblasts,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Neuronal IPCs,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Neuron,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Astrocytes,0.134,1,0.134,0.236
+Tumor,Tumor cell identification,Binary,Normal cells,Oligodendrocytes,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,Microglias,0,0,0,0
+Tumor,Tumor cell identification,Binary,Normal cells,OPCs,0,0,0,0
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Overall,0.123,0.104 (Macro),0.117 (Macro),0.130 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lung,0.081,0.071 (Macro),0.081 (Macro),0.150 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Pancreas,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Colorectal,0.007,0.050 (Macro),0.007 (Macro),0.014 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Cervical ,0.006,0.053 (Macro),0.006 (Macro),0.012 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Kidney,0.006,0.071 (Macro),0.006 (Macro),0.012 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Liver,0.006,0.067 (Macro),0.006 (Macro),0.012 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Ovarian,0.089,0.077 (Macro),0.089 (Macro),0.163 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Esophageal,0.366,0.111 (Macro),0.366 (Macro),0.536 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Gastric,0.712,0.167 (Macro),0.712 (Macro),0.832 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Breast,0.987,0.500 (Macro),0.987 (Macro),0.993 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Head-neck,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Glioma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lymphoma,0.002,0.063 (Macro),0.002 (Macro),0.004 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Melanoma,0.005,0.053 (Macro),0.005 (Macro),0.010 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Thyroid,0.002,0.053 (Macro),0.002 (Macro),0.004 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,DSRCT,0.002,0.053 (Macro),0.002 (Macro),0.004 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Myeloma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Osteosarcoma,0.004,0.050 (Macro),0.004 (Macro),0.008 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Retinoblastoma,0.013,0.050 (Macro),0.013 (Macro),0.026 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Prostate,0.005,0.050 (Macro),0.005 (Macro),0.010 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Overall,0.097,0.079 (Macro),0.094 (Macro),0.122 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Lung,0.118,0.091 (Macro),0.118 (Macro),0.211 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Pancreas,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Colorectal,0.023,0.077 (Macro),0.023 (Macro),0.045 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Liver,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Ovarian,0.007,0.125 (Macro),0.007 (Macro),0.014 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Gastric,0.386,0.143 (Macro),0.386 (Macro),0.557 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Breast,0.378,0.333 (Macro),0.378 (Macro),0.549 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Head-neck,0.018,0.143 (Macro),0.018 (Macro),0.036 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Melanoma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Thyroid,0.005,0.056 (Macro),0.005 (Macro),0.010 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Overall,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Lung,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Colorectal,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Liver,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Breast,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Melanoma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Prostate,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Stem,Stem cell identification,Binary,Stem.cell,Overall,1,1,1,1
+Stem,Stem cell identification,Binary,Stem.cell,Hematopoietic Stem Cells,1,1,1,1
+Stem,Stem cell identification,Binary,Stem.cell,Neural Stem Cells,1,1,1,1
+Stem,Stem cell identification,Binary,Stem.cell,Mesenchymal Stem Cells,1,1,1,1
+Stem,Stem cell identification,Binary,Stem.cell,Embryonic Stem Cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Overall,0.522,1,0.522,0.686
+Stem,Stem cell identification,Binary,Non.Stem.cell,Astrocytes,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,B.cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Endothelial cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Epithelial cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Fibroblasts,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Germ cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Glioblasts,0.997,1,0.997,0.998
+Stem,Stem cell identification,Binary,Non.Stem.cell,Microglias,0.306,1,0.306,0.469
+Stem,Stem cell identification,Binary,Non.Stem.cell,Myeloid cells,0,0,0,0
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuron,0,0,0,0
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuronal.IPCs ,0,0,0,0
+Stem,Stem cell identification,Binary,Non.Stem.cell,Oligodendrocytes,0,0,0,0
+Stem,Stem cell identification,Binary,Non.Stem.cell,OPCs,0,0,0,0
+Stem,Stem cell identification,Binary,Non.Stem.cell,T/NK cells,0,0,0,0
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Overall,0.335,0.169 (Macro),0.333 (Macro),0.505 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Hematopoietic Stem Cells,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Neural Stem Cells,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Mesenchymal Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell identification,Binary,Neural.cell,Overall,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Glutamatergic neurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Inhibitory interneurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Astrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Microglial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocyte precursor cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Overall,0.811,1,0.811,0.895
+Neural,Neural cell identification,Binary,Non.Neural.cell,B.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Endothelial.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Fibroblasts,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Mesenchymal.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Myeloid,0.837,1,0.837,0.911
+Neural,Neural cell identification,Binary,Non.Neural.cell,T/NK cells,0.026,1,0.026,0.051
+Neural,Neural cell identification,Binary,Non.Neural.cell,Epithelial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Germ cells,1,1,1,1
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Overall,0.237,0.320 (Macro),0.237 (Macro),0.190 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Glutamatergic neurons,0.017,0.333 (Macro),0.017 (Macro),0.034 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Inhibitory interneurons,0.009,0.333 (Macro),0.009 (Macro),0.018 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Astrocytes,0.017,0.333 (Macro),0.017 (Macro),0.033 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Microglial cells,0.069,0.500 (Macro),0.069 (Macro),0.129 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocytes,0.312,0.500 (Macro),0.312 (Macro),0.476 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocyte precursor cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)

results_UCE_metrics.csv

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+"Category	",Task,Prediction type,Cell population,Primary_site/cell type,Accuracy,Precision,Recall,F1 Score
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Overall,0.923,1,0.923,0.96
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lung,0.961,1,0.961,0.98
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Pancreas,0.998,1,0.998,0.999
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Colorectal,0.983,1,0.983,0.991
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Cervical ,0.987,1,0.987,0.993
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Kidney,0.928,1,0.928,0.963
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Liver,0.936,1,0.936,0.967
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Ovarian,0.995,1,0.995,0.997
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Esophageal,0.903,1,0.903,0.949
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Gastric,0.976,1,0.976,0.988
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Breast,0.979,1,0.979,0.989
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Head-neck,0.79,1,0.79,0.883
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Glioma,0.347,1,0.347,0.515
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lymphoma,0.801,1,0.801,0.89
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Melanoma,0.993,1,0.993,0.996
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Thyroid,0.808,1,0.808,0.894
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,DSRCT,0.999,1,0.999,0.999
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Myeloma,0.973,1,0.973,0.986
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Osteosarcoma,0.992,1,0.992,0.996
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Retinoblastoma,1,1,1,1
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Prostate,1,1,1,1
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Seminoma,0.825,1,0.825,0.904
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Overall,0.948,1,0.948,0.973
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Lung,0.984,1,0.984,0.992
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Pancreas,0.997,1,0.997,0.998
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Colorectal,0.925,1,0.925,0.961
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Liver,0.994,1,0.994,0.997
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Ovarian,0.96,1,0.96,0.98
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Gastric,0.869,1,0.869,0.93
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Breast,0.948,1,0.948,0.973
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Head-neck,0.96,1,0.96,0.98
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Melanoma,0.884,1,0.884,0.938
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Thyroid,0.964,1,0.964,0.982
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Overall,0.425,1,0.425,0.597
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Lung,0.9,1,0.9,0.947
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Colorectal,0.059,1,0.059,0.111
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Liver,0.053,1,0.053,0.101
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Breast,0.46,1,0.46,0.63
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Melanoma,0.33,1,0.33,0.497
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Prostate,0.935,1,0.935,0.966
+Tumor,Tumor cell identification,Binary,Normal cells,Overall,0.93,1,0.93,0.964
+Tumor,Tumor cell identification,Binary,Normal cells,B cells,0.878,1,0.878,0.935
+Tumor,Tumor cell identification,Binary,Normal cells,Myeloid,0.861,1,0.861,0.925
+Tumor,Tumor cell identification,Binary,Normal cells,T/NK cells,0.637,1,0.637,0.778
+Tumor,Tumor cell identification,Binary,Normal cells,Endothelial cells,0.903,1,0.903,0.949
+Tumor,Tumor cell identification,Binary,Normal cells,Epithelial cells,0.983,1,0.983,0.992
+Tumor,Tumor cell identification,Binary,Normal cells,Fibroblasts,0.893,1,0.893,0.943
+Tumor,Tumor cell identification,Binary,Normal cells,Mesenchymal cells,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Germ cells,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Neural stem cells,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Glioblasts,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Neuronal IPCs,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Neuron,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Astrocytes,0.88,1,0.88,0.936
+Tumor,Tumor cell identification,Binary,Normal cells,Oligodendrocytes,0.908,1,0.908,0.952
+Tumor,Tumor cell identification,Binary,Normal cells,Microglias,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,OPCs,1,1,1,1
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Overall,0.769,0.751 (Macro),0.781 (Macro),0.739 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lung,0.107,0.059 (Macro),0.107 (Macro),0.193 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Pancreas,0.882,0.143 (Macro),0.882 (Macro),0.937 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Colorectal,0.939,0.200 (Macro),0.939 (Macro),0.969 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Cervical ,0.819,0.083 (Macro),0.819 (Macro),0.900 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Kidney,0.945,0.250 (Macro),0.945 (Macro),0.972 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Liver,0.346,0.083 (Macro),0.346 (Macro),0.514 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Ovarian,0.981,0.111 (Macro),0.981 (Macro),0.990 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Esophageal,0.462,0.091 (Macro),0.462 (Macro),0.632 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Gastric,0.488,0.067 (Macro),0.488 (Macro),0.656 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Breast,0.845,0.100 (Macro),0.845 (Macro),0.916 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Head-neck,0.357,0.250 (Macro),0.357 (Macro),0.526 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Glioma,0.999,0.500 (Macro),0.999 (Macro),0.999 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lymphoma,0.922,0.167 (Macro),0.922 (Macro),0.959 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Melanoma,0.987,0.200 (Macro),0.987 (Macro),0.993 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Thyroid,0.813,0.071 (Macro),0.813 (Macro),0.897 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,DSRCT,0.993,0.200 (Macro),0.993 (Macro),0.996 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Myeloma,0.947,0.091 (Macro),0.947 (Macro),0.973 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Osteosarcoma,0.981,0.167 (Macro),0.981 (Macro),0.990 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Retinoblastoma,0.999,0.500 (Macro),0.999 (Macro),0.999 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Prostate,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Overall,0.658,0.318 (Macro),0.707 (Macro),0.593 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Lung,0.042,0.067 (Macro),0.042 (Macro),0.081 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Pancreas,0.983,0.200 (Macro),0.983 (Macro),0.991 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Colorectal,0.655,0.125 (Macro),0.655 (Macro),0.792 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Liver,0.992,0.250 (Macro),0.992 (Macro),0.996 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Ovarian,0.952,0.333 (Macro),0.952 (Macro),0.975 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Gastric,0.307,0.063 (Macro),0.307 (Macro),0.470 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Breast,0.85,0.167 (Macro),0.850 (Macro),0.919 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Head-neck,0.436,0.111 (Macro),0.436 (Macro),0.608 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Melanoma,0.969,0.250 (Macro),0.969 (Macro),0.984 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Thyroid,0.887,0.100 (Macro),0.887 (Macro),0.940 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Overall,0.157,0.194 (Macro),0.160 (Macro),0.342 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Lung,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Colorectal,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Liver,0.425,0.167 (Macro),0.425 (Macro),0.596 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Breast,0.064,0.071 (Macro),0.064 (Macro),0.120 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Melanoma,0.211,0.125 (Macro),0.211 (Macro),0.348 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Prostate,0.26,0.091 (Macro),0.260 (Macro),0.412 (Macro)
+Stem,Stem cell identification,Binary,Stem.cell,Overall,0.979,1,0.979,0.989
+Stem,Stem cell identification,Binary,Stem.cell,Hematopoietic Stem Cells,0.999,1,0.999,0.999
+Stem,Stem cell identification,Binary,Stem.cell,Neural Stem Cells,0.934,1,0.934,0.966
+Stem,Stem cell identification,Binary,Stem.cell,Mesenchymal Stem Cells,0.984,1,0.984,0.992
+Stem,Stem cell identification,Binary,Stem.cell,Embryonic Stem Cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Overall,0.963,1,0.963,0.981
+Stem,Stem cell identification,Binary,Non.Stem.cell,Astrocytes,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,B.cells,0.999,1,0.999,0.999
+Stem,Stem cell identification,Binary,Non.Stem.cell,Endothelial cells,0.999,1,0.999,0.999
+Stem,Stem cell identification,Binary,Non.Stem.cell,Epithelial cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Fibroblasts,0.943,1,0.943,0.971
+Stem,Stem cell identification,Binary,Non.Stem.cell,Germ cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Glioblasts,0.743,1,0.743,0.853
+Stem,Stem cell identification,Binary,Non.Stem.cell,Microglias,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Myeloid cells,0.989,1,0.989,0.994
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuron,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuronal.IPCs ,0.816,1,0.816,0.899
+Stem,Stem cell identification,Binary,Non.Stem.cell,Oligodendrocytes,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,OPCs,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,T/NK cells,0.999,1,0.999,0.999
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Overall,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Hematopoietic Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Neural Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Mesenchymal Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell identification,Binary,Neural.cell,Overall,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Glutamatergic neurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Inhibitory interneurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Astrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Microglial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocyte precursor cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Overall,0.984,1,0.984,0.992
+Neural,Neural cell identification,Binary,Non.Neural.cell,B.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Endothelial.cells,0.94,1,0.94,0.969
+Neural,Neural cell identification,Binary,Non.Neural.cell,Fibroblasts,0.982,1,0.982,0.991
+Neural,Neural cell identification,Binary,Non.Neural.cell,Mesenchymal.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Myeloid,0.984,1,0.984,0.992
+Neural,Neural cell identification,Binary,Non.Neural.cell,T/NK cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Epithelial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Germ cells,1,1,1,1
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Overall,0.998,0.998 (Macro),0.998 (Macro),0.998 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Glutamatergic neurons,0.998,0.500 (Macro),0.998 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Inhibitory interneurons,0.996,0.333 (Macro),0.996 (Macro),0.998 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Astrocytes,0.998,0.333 (Macro),0.998 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Microglial cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocytes,0.998,0.500 (Macro),0.998 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocyte precursor cells,0.999,0.500 (Macro),0.999 (Macro),0.999 (Macro)

results_scFoundation_metrics.csv

@@ -0,0 +1,144 @@
+"Category	",Task,Prediction type,Cell population,Primary_site/cell type,Accuracy,Precision,Recall,F1 Score
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Overall,0.885,1,0.885,0.939
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lung,0.911,1,0.911,0.953
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Pancreas,0.968,1,0.968,0.984
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Colorectal,0.965,1,0.965,0.982
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Cervical ,0.647,1,0.647,0.786
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Kidney,0.554,1,0.554,0.713
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Liver,0.956,1,0.956,0.978
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Ovarian,0.949,1,0.949,0.974
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Esophageal,0.904,1,0.904,0.949
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Gastric,0.889,1,0.889,0.942
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Breast,0.526,1,0.526,0.689
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Head-neck,0.967,1,0.967,0.983
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Glioma,0.301,1,0.301,0.463
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lymphoma,0.857,1,0.857,0.923
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Melanoma,0.933,1,0.933,0.965
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Thyroid,0.911,1,0.911,0.954
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,DSRCT,0.997,1,0.997,0.999
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Myeloma,0.998,1,0.998,0.999
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Osteosarcoma,0.789,1,0.789,0.882
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Retinoblastoma,0.979,1,0.979,0.989
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Prostate,1,1,1,1
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Seminoma,0.951,1,0.951,0.975
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Overall,0.95,1,0.95,0.974
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Lung,0.869,1,0.869,0.93
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Pancreas,0.982,1,0.982,0.991
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Colorectal,0.867,1,0.867,0.929
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Liver,0.992,1,0.992,0.996
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Ovarian,0.961,1,0.961,0.98
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Gastric,0.909,1,0.909,0.952
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Breast,0.976,1,0.976,0.988
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Head-neck,0.982,1,0.982,0.991
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Melanoma,0.973,1,0.973,0.986
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Thyroid,0.992,1,0.992,0.996
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Overall,0.149,1,0.149,0.259
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Lung,0.1,1,0.1,0.182
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Colorectal,0,0,0,0
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Liver,0.973,1,0.973,0.986
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Breast,0,0,0,0
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Melanoma,0,0,0,0
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Prostate,0.014,1,0.014,0.027
+Tumor,Tumor cell identification,Binary,Normal cells,Overall,0.881,1,0.881,0.939
+Tumor,Tumor cell identification,Binary,Normal cells,B cells,0.711,1,0.711,0.939
+Tumor,Tumor cell identification,Binary,Normal cells,Myeloid,0.828,1,0.828,0.831
+Tumor,Tumor cell identification,Binary,Normal cells,T/NK cells,0.712,1,0.712,0.907
+Tumor,Tumor cell identification,Binary,Normal cells,Endothelial cells,0.878,1,0.878,0.831
+Tumor,Tumor cell identification,Binary,Normal cells,Epithelial cells,0.403,1,0.403,0.933
+Tumor,Tumor cell identification,Binary,Normal cells,Fibroblasts,0.848,1,0.848,0.573
+Tumor,Tumor cell identification,Binary,Normal cells,Mesenchymal cells,0.981,1,0.981,0.921
+Tumor,Tumor cell identification,Binary,Normal cells,Germ cells,1,1,1,0.99
+Tumor,Tumor cell identification,Binary,Normal cells,Neural stem cells,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Glioblasts,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Neuronal IPCs,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Neuron,0.999,1,0.999,1
+Tumor,Tumor cell identification,Binary,Normal cells,Astrocytes,0.869,1,0.869,1
+Tumor,Tumor cell identification,Binary,Normal cells,Oligodendrocytes,0.886,1,0.886,0.931
+Tumor,Tumor cell identification,Binary,Normal cells,Microglias,1,1,1,0.94
+Tumor,Tumor cell identification,Binary,Normal cells,OPCs,1,1,1,1
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Overall,0.658,0.661 (Macro),0.628 (Macro),0.593 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lung,0.025,0.056 (Macro),0.001 (Macro),0.003 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Pancreas,0.612,0.071 (Macro),0.044 (Macro),0.054 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Colorectal,0.784,0.077 (Macro),0.060 (Macro),0.068 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Cervical ,0.199,0.071 (Macro),0.014 (Macro),0.024 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Kidney,0.748,0.063 (Macro),0.047 (Macro),0.054 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Liver,0.38,0.100 (Macro),0.038 (Macro),0.055 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Ovarian,0.815,0.063 (Macro),0.051 (Macro),0.056 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Esophageal,0.415,0.077 (Macro),0.032 (Macro),0.045 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Gastric,0.36,0.071 (Macro),0.026 (Macro),0.038 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Breast,0.674,0.056 (Macro),0.037 (Macro),0.045 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Head-neck,0.192,0.091 (Macro),0.017 (Macro),0.029 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Glioma,0.984,0.200 (Macro),0.197 (Macro),0.198 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lymphoma,0.611,0.077 (Macro),0.047 (Macro),0.058 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Melanoma,0.753,0.063 (Macro),0.047 (Macro),0.054 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Thyroid,0.703,0.071 (Macro),0.050 (Macro),0.059 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,DSRCT,0.952,0.091 (Macro),0.087 (Macro),0.089 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Myeloma,0.466,0.083 (Macro),0.039 (Macro),0.053 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Osteosarcoma,0.996,0.125 (Macro),0.125 (Macro),0.125 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Retinoblastoma,0.886,0.100 (Macro),0.089 (Macro),0.094 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Prostate,0.999,0.500 (Macro),0.500 (Macro),0.500 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Overall,0.733,0.265 (Macro),0.286 (Macro),0.254 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Lung,0.032,0.071 (Macro),0.002 (Macro),0.004 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Pancreas,0.666,0.063 (Macro),0.042 (Macro),0.050 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Colorectal,0.66,0.050 (Macro),0.033 (Macro),0.040 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Liver,0.99,0.200 (Macro),0.198 (Macro),0.199 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Ovarian,0.687,0.059 (Macro),0.040 (Macro),0.048 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Gastric,0.23,0.056 (Macro),0.013 (Macro),0.021 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Breast,0.8,0.050 (Macro),0.040 (Macro),0.044 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Head-neck,0.026,0.100 (Macro),0.003 (Macro),0.005 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Melanoma,0.831,0.056 (Macro),0.046 (Macro),0.050 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Thyroid,0.797,0.067 (Macro),0.053 (Macro),0.059 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Overall,0.114,0.035 (Macro),0.050 (Macro),0.021 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Lung,0,0.000 (Macro),0.000 (Macro),0.000 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Colorectal,0,0.000 (Macro),0.000 (Macro),0.000 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Liver,0.752,0.250 (Macro),0.188 (Macro),0.215 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Breast,0.002,0.100 (Macro),0.000 (Macro),0.001 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Melanoma,0,0.000 (Macro),0.000 (Macro),0.000 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Prostate,0,0.000 (Macro),0.000 (Macro),0.000 (Macro)
+Stem,Stem cell identification,Binary,Stem.cell,Overall,0.979,1,0.979,0.989
+Stem,Stem cell identification,Binary,Stem.cell,Hematopoietic Stem Cells,0.998,1,0.998,0.999
+Stem,Stem cell identification,Binary,Stem.cell,Neural Stem Cells,0.947,1,0.947,0.973
+Stem,Stem cell identification,Binary,Stem.cell,Mesenchymal Stem Cells,0.971,1,0.971,0.985
+Stem,Stem cell identification,Binary,Stem.cell,Embryonic Stem Cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Overall,0.961,1,0.961,0.98
+Stem,Stem cell identification,Binary,Non.Stem.cell,Astrocytes,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,B.cells,0.987,1,0.987,0.993
+Stem,Stem cell identification,Binary,Non.Stem.cell,Endothelial cells,0.998,1,0.998,0.999
+Stem,Stem cell identification,Binary,Non.Stem.cell,Epithelial cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Fibroblasts,0.906,1,0.906,0.951
+Stem,Stem cell identification,Binary,Non.Stem.cell,Germ cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Glioblasts,0.732,1,0.732,0.845
+Stem,Stem cell identification,Binary,Non.Stem.cell,Microglias,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Myeloid cells,0.981,1,0.981,0.99
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuron,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuronal.IPCs ,0.857,1,0.857,0.923
+Stem,Stem cell identification,Binary,Non.Stem.cell,Oligodendrocytes,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,OPCs,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,T/NK cells,0.996,1,0.996,0.998
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Overall,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Hematopoietic Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Neural Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Mesenchymal Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell identification,Binary,Neural.cell,Overall,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Glutamatergic neurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Inhibitory interneurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Astrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Microglial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocyte precursor cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Overall,0.998,1,0.998,0.999
+Neural,Neural cell identification,Binary,Non.Neural.cell,B.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Endothelial.cells,0.992,1,0.992,0.996
+Neural,Neural cell identification,Binary,Non.Neural.cell,Fibroblasts,0.998,1,0.998,0.999
+Neural,Neural cell identification,Binary,Non.Neural.cell,Mesenchymal.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Myeloid,0.996,1,0.996,0.998
+Neural,Neural cell identification,Binary,Non.Neural.cell,T/NK cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Epithelial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Germ cells,1,1,1,1
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Overall,0.999,0.999 (Macro),0.999 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Glutamatergic neurons,0.998,0.333 (Macro),0.998 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Inhibitory interneurons,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Astrocytes,0.998,0.333 (Macro),0.998 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Microglial cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocytes,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocyte precursor cells,0.999,0.500 (Macro),0.999 (Macro),0.999 (Macro)

results_scGPT_metrics.csv

@@ -0,0 +1,144 @@
+"Category	",Task,Prediction type,Cell population,Primary_site/cell type,Accuracy,Precision,Recall,F1 Score
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Overall,0.932,1,0.932,0.965
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lung,0.985,1,0.985,0.992
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Pancreas,0.996,1,0.996,0.998
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Colorectal,0.999,1,0.999,0.999
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Cervical ,0.995,1,0.995,0.997
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Kidney,0.858,1,0.858,0.923
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Liver,0.933,1,0.933,0.965
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Ovarian,0.994,1,0.994,0.997
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Esophageal,0.988,1,0.988,0.994
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Gastric,0.962,1,0.962,0.981
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Breast,0.987,1,0.987,0.993
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Head-neck,0.999,1,0.999,0.999
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Glioma,0.362,1,0.362,0.532
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lymphoma,0.586,1,0.586,0.739
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Melanoma,0.941,1,0.941,0.97
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Thyroid,0.934,1,0.934,0.966
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,DSRCT,1,1,1,1
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Myeloma,1,1,1,1
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Osteosarcoma,0.956,1,0.956,0.978
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Retinoblastoma,0.993,1,0.993,0.996
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Prostate,0.999,1,0.999,0.999
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Seminoma,0.95,1,0.95,0.974
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Overall,0.965,1,0.965,0.982
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Lung,0.98,1,0.98,0.99
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Pancreas,0.997,1,0.997,0.998
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Colorectal,0.924,1,0.924,0.96
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Liver,0.949,1,0.949,0.974
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Ovarian,0.972,1,0.972,0.986
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Gastric,0.929,1,0.929,0.963
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Breast,0.973,1,0.973,0.986
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Head-neck,0.947,1,0.947,0.973
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Melanoma,0.983,1,0.983,0.991
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Thyroid,0.978,1,0.978,0.989
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Overall,0.405,1,0.405,0.577
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Lung,0.8,1,0.8,0.889
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Colorectal,0.059,1,0.059,0.111
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Liver,0.088,1,0.088,0.163
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Breast,0.422,1,0.422,0.594
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Melanoma,0.33,1,0.33,0.497
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Prostate,0.909,1,0.909,0.952
+Tumor,Tumor cell identification,Binary,Normal cells,Overall,0.921,1,0.921,0.959
+Tumor,Tumor cell identification,Binary,Normal cells,B cells,0.841,1,0.841,0.913
+Tumor,Tumor cell identification,Binary,Normal cells,Myeloid,0.814,1,0.814,0.898
+Tumor,Tumor cell identification,Binary,Normal cells,T/NK cells,0.661,1,0.661,0.796
+Tumor,Tumor cell identification,Binary,Normal cells,Endothelial cells,0.865,1,0.865,0.928
+Tumor,Tumor cell identification,Binary,Normal cells,Epithelial cells,0.953,1,0.953,0.976
+Tumor,Tumor cell identification,Binary,Normal cells,Fibroblasts,0.886,1,0.886,0.939
+Tumor,Tumor cell identification,Binary,Normal cells,Mesenchymal cells,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Germ cells,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Neural stem cells,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Glioblasts,0.999,1,0.999,1
+Tumor,Tumor cell identification,Binary,Normal cells,Neuronal IPCs,0.998,1,0.998,0.999
+Tumor,Tumor cell identification,Binary,Normal cells,Neuron,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,Astrocytes,0.879,1,0.879,0.936
+Tumor,Tumor cell identification,Binary,Normal cells,Oligodendrocytes,0.907,1,0.907,0.951
+Tumor,Tumor cell identification,Binary,Normal cells,Microglias,1,1,1,1
+Tumor,Tumor cell identification,Binary,Normal cells,OPCs,1,1,1,1
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Overall,0.66,0.665 (Macro),0.698 (Macro),0.644 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lung,0.031,0.059 (Macro),0.031 (Macro),0.060 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Pancreas,0.814,0.100 (Macro),0.814 (Macro),0.898 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Colorectal,0.838,0.125 (Macro),0.838 (Macro),0.912 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Cervical ,0.47,0.100 (Macro),0.470 (Macro),0.639 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Kidney,0.602,0.067 (Macro),0.602 (Macro),0.752 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Liver,0.274,0.067 (Macro),0.274 (Macro),0.430 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Ovarian,0.929,0.067 (Macro),0.929 (Macro),0.963 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Esophageal,0.208,0.083 (Macro),0.208 (Macro),0.344 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Gastric,0.52,0.067 (Macro),0.520 (Macro),0.684 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Breast,0.727,0.071 (Macro),0.727 (Macro),0.842 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Head-neck,0.858,0.250 (Macro),0.858 (Macro),0.924 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Glioma,0.977,0.167 (Macro),0.977 (Macro),0.989 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lymphoma,0.781,0.083 (Macro),0.781 (Macro),0.877 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Melanoma,0.922,0.077 (Macro),0.922 (Macro),0.959 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Thyroid,0.519,0.067 (Macro),0.519 (Macro),0.683 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,DSRCT,0.993,0.250 (Macro),0.993 (Macro),0.996 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Myeloma,0.981,0.200 (Macro),0.981 (Macro),0.990 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Osteosarcoma,0.831,0.125 (Macro),0.831 (Macro),0.908 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Retinoblastoma,0.977,0.167 (Macro),0.977 (Macro),0.988 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Prostate,0.995,0.200 (Macro),0.995 (Macro),0.997 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Overall,0.642,0.335 (Macro),0.698 (Macro),0.562 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Lung,0.057,0.063 (Macro),0.057 (Macro),0.108 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Pancreas,0.969,0.100 (Macro),0.969 (Macro),0.984 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Colorectal,0.713,0.091 (Macro),0.713 (Macro),0.832 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Liver,0.984,0.333 (Macro),0.984 (Macro),0.992 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Ovarian,0.897,0.167 (Macro),0.897 (Macro),0.946 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Gastric,0.325,0.056 (Macro),0.325 (Macro),0.491 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Breast,0.875,0.250 (Macro),0.875 (Macro),0.933 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Head-neck,0.418,0.083 (Macro),0.418 (Macro),0.590 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Melanoma,0.939,0.143 (Macro),0.939 (Macro),0.969 (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Thyroid,0.798,0.077 (Macro),0.798 (Macro),0.888 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Overall,0.275,0.214 (Macro),0.284 (Macro),0.497 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Lung,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Colorectal,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Liver,0.575,0.200 (Macro),0.575 (Macro),0.730 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Breast,0.137,0.077 (Macro),0.137 (Macro),0.241 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Melanoma,0.211,0.111 (Macro),0.211 (Macro),0.348 (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Prostate,0.779,0.167 (Macro),0.779 (Macro),0.876 (Macro)
+Stem,Stem cell identification,Binary,Stem.cell,Overall,0.964,1,0.964,0.982
+Stem,Stem cell identification,Binary,Stem.cell,Hematopoietic Stem Cells,0.936,1,0.936,0.967
+Stem,Stem cell identification,Binary,Stem.cell,Neural Stem Cells,0.94,1,0.94,0.969
+Stem,Stem cell identification,Binary,Stem.cell,Mesenchymal Stem Cells,0.982,1,0.982,0.991
+Stem,Stem cell identification,Binary,Stem.cell,Embryonic Stem Cells,0.997,1,0.997,0.998
+Stem,Stem cell identification,Binary,Non.Stem.cell,Overall,0.957,1,0.957,0.978
+Stem,Stem cell identification,Binary,Non.Stem.cell,Astrocytes,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,B.cells,0.998,1,0.998,0.999
+Stem,Stem cell identification,Binary,Non.Stem.cell,Endothelial cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Epithelial cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Fibroblasts,0.931,1,0.931,0.964
+Stem,Stem cell identification,Binary,Non.Stem.cell,Germ cells,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Glioblasts,0.675,1,0.675,0.806
+Stem,Stem cell identification,Binary,Non.Stem.cell,Microglias,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Myeloid cells,0.992,1,0.992,0.996
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuron,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuronal.IPCs ,0.807,1,0.807,0.893
+Stem,Stem cell identification,Binary,Non.Stem.cell,Oligodendrocytes,0.998,1,0.998,0.999
+Stem,Stem cell identification,Binary,Non.Stem.cell,OPCs,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,T/NK cells,0.996,1,0.996,0.998
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Overall,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Hematopoietic Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Neural Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Mesenchymal Stem Cells,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Neural,Neural cell identification,Binary,Neural.cell,Overall,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Glutamatergic neurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Inhibitory interneurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Astrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Microglial cells,0.999,1,0.999,0.999
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocyte precursor cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Overall,0.989,1,0.989,0.995
+Neural,Neural cell identification,Binary,Non.Neural.cell,B.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Endothelial.cells,0.965,1,0.965,0.982
+Neural,Neural cell identification,Binary,Non.Neural.cell,Fibroblasts,0.986,1,0.986,0.993
+Neural,Neural cell identification,Binary,Non.Neural.cell,Mesenchymal.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Myeloid,0.984,1,0.984,0.992
+Neural,Neural cell identification,Binary,Non.Neural.cell,T/NK cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Epithelial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Germ cells,1,1,1,1
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Overall,0.997,0.997 (Macro),0.997 (Macro),0.997 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Glutamatergic neurons,0.994,0.250 (Macro),0.994 (Macro),0.997 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Inhibitory interneurons,0.993,0.333 (Macro),0.993 (Macro),0.996 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Astrocytes,0.999,0.500 (Macro),0.999 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Microglial cells,0.999,0.500 (Macro),0.999 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocytes,0.999,0.500 (Macro),0.999 (Macro),0.999 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocyte precursor cells,0.997,0.500 (Macro),0.997 (Macro),0.998 (Macro)

results_scLong_metrics.csv

@@ -0,0 +1,144 @@
+"Category	",Task,Prediction type,Cell population,Primary_site/cell type,Accuracy,Precision,Recall,F1 Score
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Overall,0.838,1,0.838,0.912
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lung,0.986,1,0.986,0.993
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Pancreas,0.973,1,0.973,0.986
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Colorectal,0.938,1,0.938,0.968
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Cervical ,0.63,1,0.63,0.773
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Kidney,0.894,1,0.894,0.944
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Liver,0.746,1,0.746,0.855
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Ovarian,0.944,1,0.944,0.971
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Esophageal,0.893,1,0.893,0.943
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Gastric,0.866,1,0.866,0.928
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Breast,0.287,1,0.287,0.446
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Head-neck,0.867,1,0.867,0.929
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Glioma,0.322,1,0.322,0.488
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Lymphoma,0.827,1,0.827,0.905
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Melanoma,0.997,1,0.997,0.998
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Thyroid,0.88,1,0.88,0.936
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,DSRCT,0.949,1,0.949,0.974
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Myeloma,0.743,1,0.743,0.853
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Osteosarcoma,0.957,1,0.957,0.978
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Retinoblastoma,0.996,1,0.996,0.998
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Prostate,0.816,1,0.816,0.899
+Tumor,Tumor cell identification,Binary,Primary tumor cells ,Seminoma,0.983,1,0.983,0.991
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Overall,0.91,1,0.91,0.953
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Lung,0.961,1,0.961,0.98
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Pancreas,0.852,1,0.852,0.92
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Colorectal,0.903,1,0.903,0.949
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Liver,0.924,1,0.924,0.96
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Ovarian,0.85,1,0.85,0.919
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Gastric,0.923,1,0.923,0.96
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Breast,0.954,1,0.954,0.977
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Head-neck,0.722,1,0.722,0.839
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Melanoma,0.914,1,0.914,0.955
+Tumor,Tumor cell identification,Binary,Metastatic tumor cells ,Thyroid,0.953,1,0.953,0.976
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Overall,0.715,1,0.715,0.834
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Lung,0.9,1,0.9,0.947
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Colorectal,0.941,1,0.941,0.97
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Liver,0,NA,0,NA
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Breast,0.84,1,0.84,0.913
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Melanoma,0.743,1,0.743,0.853
+Tumor,Tumor cell identification,Binary,Circulating Tumor Cells,Prostate,0.961,1,0.961,0.98
+Tumor,Tumor cell identification,Binary,Normal cells,Overall,0.726,1,0.726,0.842
+Tumor,Tumor cell identification,Binary,Normal cells,B cells,0.421,1,0.421,0.593
+Tumor,Tumor cell identification,Binary,Normal cells,Myeloid,0.447,1,0.447,0.618
+Tumor,Tumor cell identification,Binary,Normal cells,T/NK cells,0.427,1,0.427,0.598
+Tumor,Tumor cell identification,Binary,Normal cells,Endothelial cells,0.532,1,0.532,0.695
+Tumor,Tumor cell identification,Binary,Normal cells,Epithelial cells,0.742,1,0.742,0.852
+Tumor,Tumor cell identification,Binary,Normal cells,Fibroblasts,0.501,1,0.501,0.668
+Tumor,Tumor cell identification,Binary,Normal cells,Mesenchymal cells,0.619,1,0.619,0.765
+Tumor,Tumor cell identification,Binary,Normal cells,Germ cells,0.817,1,0.817,0.899
+Tumor,Tumor cell identification,Binary,Normal cells,Neural stem cells,0.973,1,0.973,0.986
+Tumor,Tumor cell identification,Binary,Normal cells,Glioblasts,0.984,1,0.984,0.992
+Tumor,Tumor cell identification,Binary,Normal cells,Neuronal IPCs,0.971,1,0.971,0.985
+Tumor,Tumor cell identification,Binary,Normal cells,Neuron,0.992,1,0.992,0.996
+Tumor,Tumor cell identification,Binary,Normal cells,Astrocytes,0.713,1,0.713,0.832
+Tumor,Tumor cell identification,Binary,Normal cells,Oligodendrocytes,0.663,1,0.663,0.798
+Tumor,Tumor cell identification,Binary,Normal cells,Microglias,0.972,1,0.972,0.986
+Tumor,Tumor cell identification,Binary,Normal cells,OPCs,0.996,1,0.996,0.998
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Overall,0.051,0.051 (Macro),0.050 (Macro),0.096 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lung,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Pancreas,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Colorectal,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Cervical ,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Kidney,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Liver,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Ovarian,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Esophageal,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Gastric,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Breast,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Head-neck,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Glioma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Lymphoma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Melanoma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Thyroid,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,DSRCT,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Myeloma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Osteosarcoma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Retinoblastoma,1,1.000 (Macro),1.000 (Macro),1.000 (Macro)
+Tumor,Primary site tracing,Multi-class,Primary tumor cells ,Prostate,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Overall,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Lung,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Pancreas,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Colorectal,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Liver,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Ovarian,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Gastric,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Breast,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Head-neck,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Melanoma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Metastatic tumor cells ,Thyroid,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Overall,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Lung,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Colorectal,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Liver,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Breast,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Melanoma,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Tumor,Primary site tracing,Multi-class,Circulating Tumor Cells,Prostate,0,0.000 (Macro),0.000 (Macro),NA (Macro)
+Stem,Stem cell identification,Binary,Stem.cell,Overall,0.904,1,0.904,0.95
+Stem,Stem cell identification,Binary,Stem.cell,Hematopoietic Stem Cells,0.989,1,0.989,0.994
+Stem,Stem cell identification,Binary,Stem.cell,Neural Stem Cells,0.8,1,0.8,0.889
+Stem,Stem cell identification,Binary,Stem.cell,Mesenchymal Stem Cells,0.83,1,0.83,0.907
+Stem,Stem cell identification,Binary,Stem.cell,Embryonic Stem Cells,0.997,1,0.997,0.998
+Stem,Stem cell identification,Binary,Non.Stem.cell,Overall,0.704,1,0.704,0.827
+Stem,Stem cell identification,Binary,Non.Stem.cell,Astrocytes,0.994,1,0.994,0.997
+Stem,Stem cell identification,Binary,Non.Stem.cell,B.cells,0.74,1,0.74,0.851
+Stem,Stem cell identification,Binary,Non.Stem.cell,Endothelial cells,0.627,1,0.627,0.771
+Stem,Stem cell identification,Binary,Non.Stem.cell,Epithelial cells,0.5,1,0.5,0.667
+Stem,Stem cell identification,Binary,Non.Stem.cell,Fibroblasts,0.281,1,0.281,0.439
+Stem,Stem cell identification,Binary,Non.Stem.cell,Germ cells,0.929,1,0.929,0.963
+Stem,Stem cell identification,Binary,Non.Stem.cell,Glioblasts,0.425,1,0.425,0.596
+Stem,Stem cell identification,Binary,Non.Stem.cell,Microglias,0.993,1,0.993,0.996
+Stem,Stem cell identification,Binary,Non.Stem.cell,Myeloid cells,0.613,1,0.613,0.76
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuron,1,1,1,1
+Stem,Stem cell identification,Binary,Non.Stem.cell,Neuronal.IPCs ,0.263,1,0.263,0.416
+Stem,Stem cell identification,Binary,Non.Stem.cell,Oligodendrocytes,0.995,1,0.995,0.997
+Stem,Stem cell identification,Binary,Non.Stem.cell,OPCs,0.997,1,0.997,0.998
+Stem,Stem cell identification,Binary,Non.Stem.cell,T/NK cells,0.505,1,0.505,0.671
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Overall,0.995,0.333 (Macro),0.995 (Macro),0.997 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Hematopoietic Stem Cells,0.985,0.500 (Macro),0.985 (Macro),0.992 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Neural Stem Cells,0.985,0.333 (Macro),0.985 (Macro),0.992 (Macro)
+Stem,Stem cell subtype classification,Multi-class,Stem.cell,Mesenchymal Stem Cells,0.988,0.988 (Macro),0.988 (Macro),0.988 (Macro)
+Neural,Neural cell identification,Binary,Neural.cell,Overall,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Glutamatergic neurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Inhibitory interneurons,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Astrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Microglial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocytes,1,1,1,1
+Neural,Neural cell identification,Binary,Neural.cell,Oligodendrocyte precursor cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Overall,0.993,1,0.993,0.997
+Neural,Neural cell identification,Binary,Non.Neural.cell,B.cells,0.987,1,0.987,0.993
+Neural,Neural cell identification,Binary,Non.Neural.cell,Endothelial.cells,0.993,1,0.993,0.996
+Neural,Neural cell identification,Binary,Non.Neural.cell,Fibroblasts,0.993,1,0.993,0.996
+Neural,Neural cell identification,Binary,Non.Neural.cell,Mesenchymal.cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Myeloid,0.99,1,0.99,0.995
+Neural,Neural cell identification,Binary,Non.Neural.cell,T/NK cells,0.998,1,0.998,0.999
+Neural,Neural cell identification,Binary,Non.Neural.cell,Epithelial cells,1,1,1,1
+Neural,Neural cell identification,Binary,Non.Neural.cell,Germ cells,1,1,1,1
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Overall,0.58,0.582 (Macro),0.580 (Macro),0.561 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Glutamatergic neurons,0.485,0.167 (Macro),0.485 (Macro),0.654 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Inhibitory interneurons,0.303,0.167 (Macro),0.303 (Macro),0.465 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Astrocytes,0.329,0.167 (Macro),0.329 (Macro),0.495 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Microglial cells,0.833,0.167 (Macro),0.833 (Macro),0.909 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocytes,0.812,0.167 (Macro),0.812 (Macro),0.896 (Macro)
+Neural,Neural cell subtype classification,Multi-class,Neural.cell,Oligodendrocyte precursor cells,0.716,0.167 (Macro),0.716 (Macro),0.834 (Macro)