James
commited on
Commit
•
dade98a
1
Parent(s):
e89cf65
Added model
Browse files- .gitattributes +1 -0
- lung-adeno-squam-v1/keras_metadata.pb +3 -0
- lung-adeno-squam-v1/params.json +99 -0
- lung-adeno-squam-v1/saved_model.pb +3 -0
- lung-adeno-squam-v1/slide_manifest.csv +942 -0
- lung-adeno-squam-v1/variables/variables.data-00000-of-00001 +3 -0
- lung-adeno-squam-v1/variables/variables.index +0 -0
.gitattributes
CHANGED
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@@ -32,3 +32,4 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
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| 32 |
*.zip filter=lfs diff=lfs merge=lfs -text
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| 33 |
*.zst filter=lfs diff=lfs merge=lfs -text
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| 34 |
*tfevents* filter=lfs diff=lfs merge=lfs -text
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| 32 |
*.zip filter=lfs diff=lfs merge=lfs -text
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| 33 |
*.zst filter=lfs diff=lfs merge=lfs -text
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| 34 |
*tfevents* filter=lfs diff=lfs merge=lfs -text
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| 35 |
+
lung-adeno-squam-v1/variables/variables.data-00000-of-00001 filter=lfs diff=lfs merge=lfs -text
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lung-adeno-squam-v1/keras_metadata.pb
ADDED
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@@ -0,0 +1,3 @@
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| 1 |
+
version https://git-lfs.github.com/spec/v1
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| 2 |
+
oid sha256:7e8a99d03608a85c91dd214a658c64e73f31c7732526e2823cc166378893fcea
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| 3 |
+
size 556755
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lung-adeno-squam-v1/params.json
ADDED
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@@ -0,0 +1,99 @@
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{
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"slideflow_version": "1.0.6-PL",
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| 3 |
+
"project": "TCGA_LUNG",
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| 4 |
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"backend": "tensorflow",
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| 5 |
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"git_commit": "e702f7b905914d996a26421bfc990d39aa4307b3",
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| 6 |
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"model_name": "cohort-EXP_AA_FULL-HP0",
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| 7 |
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"full_model_name": "cohort-EXP_AA_FULL-HP0",
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| 8 |
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"stage": "training",
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| 9 |
+
"img_format": "png",
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| 10 |
+
"tile_px": 299,
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| 11 |
+
"tile_um": 302,
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| 12 |
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"max_tiles": 0,
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| 13 |
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"min_tiles": 0,
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"model_type": "categorical",
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+
"outcome_label_headers": [
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"cohort"
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],
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| 18 |
+
"input_features": null,
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| 19 |
+
"input_feature_sizes": null,
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| 20 |
+
"input_feature_labels": null,
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| 21 |
+
"outcome_labels": {
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| 22 |
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"0": "LUAD",
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| 23 |
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"1": "LUSC"
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},
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| 25 |
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"dataset_config": "/mnt/data/datasets.json",
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"sources": [
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"TCGA_LUAD",
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"TCGA_LUSC",
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"LUNG_GAN"
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],
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"annotations": "/mnt/data/projects/TCGA_LUNG/experiments.csv",
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"validation_strategy": "none",
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| 33 |
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"validation_fraction": null,
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| 34 |
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"validation_k_fold": 3,
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"k_fold_i": null,
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"filters": {
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"include_AA": [
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"include"
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]
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},
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"pretrain": "imagenet",
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"resume_training": null,
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| 43 |
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"checkpoint": null,
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"hp": {
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"augment": "xyrjb",
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| 46 |
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"batch_size": 128,
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| 47 |
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"drop_images": false,
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| 48 |
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"dropout": 0.1,
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| 49 |
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"early_stop": true,
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| 50 |
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"early_stop_method": "accuracy",
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| 51 |
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"early_stop_patience": 0,
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| 52 |
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"epochs": [
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1
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],
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| 55 |
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"hidden_layer_width": 1024,
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| 56 |
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"hidden_layers": 2,
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| 57 |
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"include_top": false,
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| 58 |
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"l1": 0.0,
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| 59 |
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"l1_dense": 0.0,
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| 60 |
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"l2": 0.0,
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| 61 |
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"l2_dense": 0.0,
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| 62 |
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"learning_rate": 0.0001,
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| 63 |
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"learning_rate_decay": 0.98,
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| 64 |
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"learning_rate_decay_steps": 512,
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| 65 |
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"loss": "sparse_categorical_crossentropy",
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| 66 |
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"model": "xception",
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| 67 |
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"normalizer": "reinhard_fast",
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| 68 |
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"normalizer_source": "dataset",
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"optimizer": "Adam",
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| 70 |
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"pooling": "avg",
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| 71 |
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"tile_px": 299,
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| 72 |
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"tile_um": 302,
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| 73 |
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"toplayer_epochs": 0,
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| 74 |
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"trainable_layers": 0,
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"training_balance": "category",
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"uq": true,
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"validation_balance": "none"
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},
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"training_kwargs": {
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"save_predictions": false,
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"save_model": true,
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| 82 |
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"validate_on_batch": 32,
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| 83 |
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"steps_per_epoch_override": 1451
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},
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"norm_fit": {
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| 86 |
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"target_means": [
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| 87 |
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72.10326385498047,
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| 88 |
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22.613067626953125,
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| 89 |
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-12.972694396972656
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| 90 |
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],
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| 91 |
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"target_stds": [
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14.779884338378906,
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| 94 |
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6.721444606781006
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| 95 |
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],
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| 96 |
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"stain_matrix_target": null,
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| 97 |
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"target_concentrations": null
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| 98 |
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}
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| 99 |
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}
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lung-adeno-squam-v1/saved_model.pb
ADDED
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@@ -0,0 +1,3 @@
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| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:a15461275be8ee193407476b78e318385f349b4744ba5337c275aef922b039c6
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| 3 |
+
size 4285465
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lung-adeno-squam-v1/slide_manifest.csv
ADDED
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@@ -0,0 +1,942 @@
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| 1 |
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| 2 |
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lung-adeno-squam-v1/variables/variables.data-00000-of-00001
ADDED
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lung-adeno-squam-v1/variables/variables.index
ADDED
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