[f123c6]: / reports / vae / files / 20240729_050521_hyperparameters.json

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{
"dataname": "depmap23Q2",
"load_run": null,
"save_model": false,
"skip_cv": true,
"verbose": 0,
"skip_benchmarks": false,
"datasets": {
"proteomics": "/home/debian/PhenPred/data/clines//proteomics.csv",
"metabolomics": "/home/debian/PhenPred/data/clines//metabolomics.csv",
"drugresponse": "/home/debian/PhenPred/data/clines//drugresponse.csv",
"crisprcas9": "/home/debian/PhenPred/data/clines//depmap23Q2/CRISPRGeneEffect.csv",
"methylation": "/home/debian/PhenPred/data/clines//methylation.csv",
"transcriptomics": "/home/debian/PhenPred/data/clines//depmap23Q2/OmicsExpressionGenesExpectedCountProfileVoom.csv",
"copynumber": "/home/debian/PhenPred/data/clines//cnv_summary_20230303_matrix.csv"
},
"view_loss_recon_type": [
"mean",
"mean",
"mean",
"mean",
"mean",
"mean",
"macro"
],
"view_loss_weights": [
1.0,
1.0,
1.0,
1.0,
1.0,
1.0,
1.0
],
"model": "MOSA",
"standardize": true,
"labels": [
"tissue",
"mutations",
"fussions",
"msi",
"growth"
],
"filter_features": [
"transcriptomics",
"crisprcas9",
"methylation"
],
"filtered_encoder_only": true,
"batch_norm": false,
"use_conditionals": true,
"feature_miss_rate_thres": 0.85,
"num_epochs": 100,
"learning_rate": 0.0003133867795135027,
"batch_size": 76,
"n_folds": 3,
"view_latent_dim": 0.06537582953692514,
"latent_dim": 215,
"hidden_dims": [
0.3
],
"probability": 0.3112989096602522,
"feature_dropout": 0,
"view_dropout": 0.3,
"w_decay": 0.0005,
"w_kl": 0.0004011464801894979,
"w_rec": 1,
"w_gauss": 0.0001,
"w_cat": 0.01,
"w_contrastive": 0.040129209100895374,
"contrastive_pos_margin": 0.85,
"contrastive_neg_margin": 0.15,
"gmvae_k": 51,
"gmvae_views_logits": 726,
"gmvae_hidden_size": 935,
"gmvae_decay_temp": true,
"gmvae_init_temp": 1.0,
"gmvae_min_temp": 0.5,
"gmvae_hard_gumbel": 0.7936881144482251,
"gmvae_decay_temp_rate": 0.013862944,
"optimizer_type": "adam",
"reconstruction_loss": "<not serializable>",
"activation_function": "<not serializable>",
"scheduler": "plateau",
"scheduler_threshold": 0.0001,
"scheduler_factor": 0.392653439046786,
"scheduler_patience": 7,
"scheduler_min_lr": 1e-07,
"lambda_d": 0.0001,
"lambda_od": 0.0001,
"dip_vae_type": "ii"
}