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scvi-tools
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mouse_thymus_cite_totalvi

scvi-tools
biology
genomics
single-cell
model_cls_name:TOTALVI
scvi_version:1.2.0
anndata_version:0.11.1
modality:rna
modality:protein
tissue:thymus
annotated:True
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@@ -57,19 +57,19 @@ Modality: rna
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  | Metric | Training Value | Validation Value |
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  |-------------------------|----------------|------------------|
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- | Mean Absolute Error | 2.07 | 2.06 |
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- | Pearson Correlation | 0.57 | 0.63 |
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- | Spearman Correlation | 0.63 | 0.64 |
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- | R² (R-Squared) | -4.01 | -4.47 |
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  Modality: protein
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  | Metric | Training Value | Validation Value |
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  |-------------------------|----------------|------------------|
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  | Mean Absolute Error | 0.23 | 0.23 |
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- | Pearson Correlation | 0.74 | 0.72 |
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- | Spearman Correlation | 0.72 | 0.70 |
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- | R² (R-Squared) | 0.39 | 0.36 |
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@@ -82,10 +82,10 @@ Modality: rna
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  | Metric | Training Value |
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  |-------------------------|----------------|
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- | Mean Absolute Error | 4.88 |
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- | Pearson Correlation | 0.88 |
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  | Spearman Correlation | 0.98 |
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- | R² (R-Squared) | 0.76 |
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  Modality: protein
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@@ -93,8 +93,8 @@ Modality: protein
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  |-------------------------|----------------|
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  | Mean Absolute Error | 0.23 |
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  | Pearson Correlation | 0.93 |
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- | Spearman Correlation | 0.97 |
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- | R² (R-Squared) | 0.64 |
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@@ -115,53 +115,53 @@ Modality: rna
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  | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
117
  | --- | --- | --- | --- | --- | --- | --- | --- |
118
- | DP (Q2) | 0.90 | 2.14 | 0.49 | 0.85 | 0.09 | 0.02 | 10864.00 |
119
- | DP (Sig.) | 0.83 | 1.98 | 0.48 | 0.86 | 0.03 | 0.02 | 9824.00 |
120
- | DP (Q1) | 0.89 | 1.78 | 0.52 | 0.86 | 0.02 | 0.02 | 8556.00 |
121
- | Mature CD4 | 0.95 | 2.08 | 0.59 | 0.88 | 0.05 | 0.02 | 6525.00 |
122
- | Immature CD8 | 0.93 | 2.05 | 0.56 | 0.87 | 0.02 | 0.02 | 5686.00 |
123
- | DP (P) | 0.92 | 1.32 | 0.66 | 0.96 | 0.85 | 0.08 | 5593.00 |
124
- | Immature CD4 | 0.94 | 1.96 | 0.59 | 0.85 | 0.02 | 0.02 | 5164.00 |
125
- | Mature CD8 | 0.86 | 1.80 | 0.67 | 0.91 | 0.34 | 0.08 | 4234.00 |
126
- | DN | 0.79 | 1.47 | 0.63 | 0.94 | 0.69 | 0.14 | 2395.00 |
127
- | GD T | 0.78 | 2.05 | 0.62 | 0.82 | 0.34 | 0.33 | 2279.00 |
128
- | Treg | 0.89 | 2.15 | 0.62 | 0.81 | 0.42 | 0.35 | 1966.00 |
129
- | Neg. sel. (2) | 0.88 | 2.77 | 0.60 | 0.72 | 0.29 | 0.26 | 1560.00 |
130
- | Dying | 0.66 | 3.17 | 0.56 | 0.54 | 0.02 | 0.01 | 1552.00 |
131
- | Neg. sel. (1) | 0.80 | 2.66 | 0.63 | 0.76 | 0.20 | 0.13 | 1206.00 |
132
- | Mature cycling | 0.87 | 2.29 | 0.67 | 0.85 | 0.78 | 0.72 | 992.00 |
133
- | Interferon sig. | 0.85 | 2.89 | 0.64 | 0.62 | 0.26 | 0.14 | 984.00 |
134
- | NKT | 0.67 | 2.19 | 0.53 | 0.78 | 0.58 | 0.35 | 928.00 |
135
- | Myeloid | 0.86 | 1.40 | 0.69 | 0.87 | 0.55 | 0.40 | 908.00 |
136
- | Doublet | 0.54 | 2.84 | 0.61 | 0.48 | 0.29 | 0.04 | 677.00 |
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- | B | 0.86 | 3.86 | 0.66 | 0.64 | 0.22 | 0.01 | 106.00 |
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- | Erythrocyte | 0.76 | 4.71 | 0.59 | 0.48 | 0.31 | 0.02 | 43.00 |
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  Modality: protein
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  | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
143
  | --- | --- | --- | --- | --- | --- | --- | --- |
144
- | DP (Q2) | 0.91 | 0.04 | 1.00 | 0.99 | 0.12 | 0.15 | 10864.00 |
145
- | DP (Sig.) | 1.00 | 0.04 | 0.99 | 0.97 | 0.28 | 0.32 | 9824.00 |
146
- | DP (Q1) | 1.00 | 0.04 | 1.00 | 1.00 | 0.11 | 0.15 | 8556.00 |
147
  | Mature CD4 | 1.00 | 0.06 | 1.00 | 1.00 | 0.11 | 0.15 | 6525.00 |
148
- | Immature CD8 | 1.00 | 0.04 | 1.00 | 0.99 | 0.36 | 0.38 | 5686.00 |
149
- | DP (P) | 1.00 | 0.04 | 1.00 | 0.97 | 0.25 | 0.18 | 5593.00 |
150
- | Immature CD4 | 1.00 | 0.05 | 1.00 | 0.98 | 0.27 | 0.27 | 5164.00 |
151
- | Mature CD8 | 1.00 | 0.06 | 1.00 | 0.99 | 0.09 | 0.15 | 4234.00 |
152
- | DN | 0.82 | 0.08 | 1.00 | 0.98 | 0.43 | 0.23 | 2395.00 |
153
- | GD T | 1.00 | 0.08 | 0.99 | 0.97 | 0.73 | 0.75 | 2279.00 |
154
  | Treg | 1.00 | 0.06 | 1.00 | 0.99 | 0.64 | 0.67 | 1966.00 |
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- | Neg. sel. (2) | 0.91 | 0.06 | 1.00 | 0.99 | 0.64 | 0.67 | 1560.00 |
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  | Dying | 0.91 | 0.07 | 0.98 | 0.97 | 0.55 | 0.58 | 1552.00 |
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- | Neg. sel. (1) | 1.00 | 0.07 | 0.99 | 0.98 | 0.63 | 0.63 | 1206.00 |
158
- | Mature cycling | 0.91 | 0.06 | 0.99 | 0.98 | 0.45 | 0.50 | 992.00 |
159
- | Interferon sig. | 0.91 | 0.06 | 0.97 | 0.88 | 0.46 | 0.46 | 984.00 |
160
- | NKT | 1.00 | 0.09 | 0.99 | 0.98 | 0.64 | 0.67 | 928.00 |
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- | Myeloid | 0.91 | 0.10 | 0.99 | 0.97 | 0.91 | 0.92 | 908.00 |
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- | Doublet | 0.55 | 0.13 | 0.83 | 0.83 | 0.95 | 0.73 | 677.00 |
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- | B | 0.91 | 0.23 | 0.99 | 0.94 | 0.82 | 0.84 | 106.00 |
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- | Erythrocyte | 0.55 | 0.39 | 0.94 | 0.83 | 0.49 | 0.62 | 43.00 |
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  | Metric | Training Value | Validation Value |
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  |-------------------------|----------------|------------------|
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+ | Mean Absolute Error | 2.12 | 2.10 |
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+ | Pearson Correlation | 0.54 | 0.61 |
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+ | Spearman Correlation | 0.62 | 0.61 |
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+ | R² (R-Squared) | -3.43 | -5.98 |
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  Modality: protein
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  | Metric | Training Value | Validation Value |
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  |-------------------------|----------------|------------------|
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  | Mean Absolute Error | 0.23 | 0.23 |
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+ | Pearson Correlation | 0.72 | 0.72 |
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+ | Spearman Correlation | 0.71 | 0.71 |
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+ | R² (R-Squared) | 0.38 | 0.40 |
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  | Metric | Training Value |
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  |-------------------------|----------------|
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+ | Mean Absolute Error | 5.44 |
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+ | Pearson Correlation | 0.85 |
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  | Spearman Correlation | 0.98 |
88
+ | R² (R-Squared) | 0.68 |
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  Modality: protein
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  |-------------------------|----------------|
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  | Mean Absolute Error | 0.23 |
95
  | Pearson Correlation | 0.93 |
96
+ | Spearman Correlation | 0.96 |
97
+ | R² (R-Squared) | 0.59 |
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  | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
117
  | --- | --- | --- | --- | --- | --- | --- | --- |
118
+ | DP (Q2) | 0.88 | 2.15 | 0.45 | 0.82 | 0.08 | 0.02 | 10864.00 |
119
+ | DP (Sig.) | 0.84 | 2.10 | 0.39 | 0.85 | 0.03 | 0.02 | 9824.00 |
120
+ | DP (Q1) | 0.90 | 1.90 | 0.44 | 0.84 | 0.02 | 0.02 | 8556.00 |
121
+ | Mature CD4 | 0.93 | 2.20 | 0.55 | 0.88 | 0.05 | 0.02 | 6525.00 |
122
+ | Immature CD8 | 0.94 | 2.19 | 0.51 | 0.86 | 0.02 | 0.02 | 5686.00 |
123
+ | DP (P) | 0.92 | 1.37 | 0.62 | 0.95 | 0.85 | 0.08 | 5593.00 |
124
+ | Immature CD4 | 0.90 | 2.17 | 0.52 | 0.85 | 0.02 | 0.02 | 5164.00 |
125
+ | Mature CD8 | 0.87 | 2.38 | 0.51 | 0.87 | 0.34 | 0.07 | 4234.00 |
126
+ | DN | 0.80 | 1.59 | 0.57 | 0.93 | 0.68 | 0.13 | 2395.00 |
127
+ | GD T | 0.82 | 2.40 | 0.54 | 0.79 | 0.34 | 0.33 | 2279.00 |
128
+ | Treg | 0.88 | 2.55 | 0.52 | 0.77 | 0.42 | 0.37 | 1966.00 |
129
+ | Neg. sel. (2) | 0.84 | 2.72 | 0.61 | 0.75 | 0.29 | 0.26 | 1560.00 |
130
+ | Dying | 0.65 | 3.33 | 0.51 | 0.49 | 0.02 | 0.01 | 1552.00 |
131
+ | Neg. sel. (1) | 0.77 | 3.01 | 0.57 | 0.73 | 0.20 | 0.12 | 1206.00 |
132
+ | Mature cycling | 0.87 | 2.65 | 0.59 | 0.84 | 0.78 | 0.71 | 992.00 |
133
+ | Interferon sig. | 0.85 | 2.93 | 0.63 | 0.64 | 0.26 | 0.15 | 984.00 |
134
+ | NKT | 0.65 | 2.21 | 0.52 | 0.77 | 0.58 | 0.40 | 928.00 |
135
+ | Myeloid | 0.86 | 1.61 | 0.62 | 0.85 | 0.54 | 0.41 | 908.00 |
136
+ | Doublet | 0.51 | 3.48 | 0.49 | 0.39 | 0.30 | 0.03 | 677.00 |
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+ | B | 0.81 | 4.19 | 0.62 | 0.60 | 0.26 | 0.02 | 106.00 |
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+ | Erythrocyte | 0.82 | 4.84 | 0.58 | 0.46 | 0.42 | 0.02 | 43.00 |
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  Modality: protein
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  | Index | gene_f1 | lfc_mae | lfc_pearson | lfc_spearman | roc_auc | pr_auc | n_cells |
143
  | --- | --- | --- | --- | --- | --- | --- | --- |
144
+ | DP (Q2) | 0.91 | 0.04 | 1.00 | 0.99 | 0.11 | 0.15 | 10864.00 |
145
+ | DP (Sig.) | 1.00 | 0.03 | 0.99 | 0.97 | 0.27 | 0.32 | 9824.00 |
146
+ | DP (Q1) | 0.91 | 0.04 | 1.00 | 1.00 | 0.11 | 0.15 | 8556.00 |
147
  | Mature CD4 | 1.00 | 0.06 | 1.00 | 1.00 | 0.11 | 0.15 | 6525.00 |
148
+ | Immature CD8 | 0.82 | 0.05 | 0.99 | 0.99 | 0.36 | 0.38 | 5686.00 |
149
+ | DP (P) | 1.00 | 0.06 | 0.99 | 0.97 | 0.25 | 0.18 | 5593.00 |
150
+ | Immature CD4 | 1.00 | 0.04 | 1.00 | 0.98 | 0.27 | 0.27 | 5164.00 |
151
+ | Mature CD8 | 1.00 | 0.07 | 0.99 | 0.98 | 0.09 | 0.15 | 4234.00 |
152
+ | DN | 0.91 | 0.08 | 1.00 | 0.97 | 0.43 | 0.23 | 2395.00 |
153
+ | GD T | 1.00 | 0.09 | 0.99 | 0.98 | 0.73 | 0.75 | 2279.00 |
154
  | Treg | 1.00 | 0.06 | 1.00 | 0.99 | 0.64 | 0.67 | 1966.00 |
155
+ | Neg. sel. (2) | 1.00 | 0.07 | 0.99 | 0.98 | 0.64 | 0.67 | 1560.00 |
156
  | Dying | 0.91 | 0.07 | 0.98 | 0.97 | 0.55 | 0.58 | 1552.00 |
157
+ | Neg. sel. (1) | 0.91 | 0.07 | 0.99 | 0.97 | 0.64 | 0.66 | 1206.00 |
158
+ | Mature cycling | 0.91 | 0.08 | 0.99 | 0.97 | 0.45 | 0.50 | 992.00 |
159
+ | Interferon sig. | 0.91 | 0.07 | 0.96 | 0.86 | 0.46 | 0.45 | 984.00 |
160
+ | NKT | 0.91 | 0.11 | 0.99 | 0.98 | 0.64 | 0.67 | 928.00 |
161
+ | Myeloid | 1.00 | 0.09 | 0.99 | 0.97 | 0.91 | 0.92 | 908.00 |
162
+ | Doublet | 0.64 | 0.11 | 0.81 | 0.84 | 0.94 | 0.76 | 677.00 |
163
+ | B | 0.91 | 0.30 | 0.98 | 0.92 | 0.82 | 0.81 | 106.00 |
164
+ | Erythrocyte | 0.64 | 0.41 | 0.94 | 0.85 | 0.49 | 0.62 | 43.00 |
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