[up] visualization of synth and real datasets

Lagergren-Lab · Nov 1, 2023 · 3ce24f5 · 3ce24f5
1 parent d7a8508
commit 3ce24f5
Show file tree

Hide file tree

Showing 9 changed files with 826 additions and 0 deletions.
diff --git a/src/experiments/result_viz.ipynb b/src/experiments/result_viz.ipynb
diff --git a/src/experiments/var_tree_experiments/dat9979_K6M1000N300/adata.h5ad b/src/experiments/var_tree_experiments/dat9979_K6M1000N300/adata.h5ad
diff --git a/src/experiments/var_tree_experiments/dat9979_K6M1000N300/cn.png b/src/experiments/var_tree_experiments/dat9979_K6M1000N300/cn.png
diff --git a/src/experiments/var_tree_experiments/dat9979_K6M1000N300/scoretemp1.3gtm2.0fs.csv b/src/experiments/var_tree_experiments/dat9979_K6M1000N300/scoretemp1.3gtm2.0fs.csv
@@ -0,0 +1,2 @@
+dataset_id,K,vK,M,N,true_ll,vi_ll,vi_diff,elbo,iters,time,ari,v_meas,cn_mad,edge_sensitivity,edge_precision,avg_edge_precision,qt_support,qt_true_rank,qt_true,qt_mst,pt_true,pt_mst,qt_entropy,extend_temp,gt_temp_mult,final_step
+9979,6,6,1014,300,-80230.4609375,-80708.734375,478.2734375,-82006.3671875,59,163.7165756225586,1.0,1.0,0.0,0.2,0.2,0.12399999797344208,8,-1,0.0,0.17999999225139618,2.570642501229093e-84,0.1561018814120466,0.982399986189139,1.3,2.0,1
diff --git a/src/experiments/var_tree_experiments/dat9979_K6M1000N300/trees.png b/src/experiments/var_tree_experiments/dat9979_K6M1000N300/trees.png
diff --git a/src/experiments/var_tree_experiments/dat9979_K6M1000N300/victree.config.json b/src/experiments/var_tree_experiments/dat9979_K6M1000N300/victree.config.json
@@ -0,0 +1 @@
+{"temp_extend": 1.3, "qZ_temp": 1.0, "qT_temp": 1014, "gT_temp": 2028.0, "merge_and_split_interval": 5, "step_size_delay": 2.0, "step_size_forgetting_rate": 0.7, "step_size_scheme": "None", "batch_size": 20, "SVI": false, "split": "ELBO", "curr_it": 59, "qc_smoothing": false, "_diagnostics": false, "step_size": 1.0, "annealing": 1.0, "_n_nodes": 6, "_n_states": 7, "_eps0": 0.01, "_n_cells": 300, "_chain_length": 1014, "_n_chromosomes": 24, "_chromosome_indexes": [81, 160, 224, 286, 345, 401, 453, 501, 547, 591, 635, 679, 717, 752, 786, 816, 843, 869, 889, 910, 926, 943, 994], "_wis_sample_size": 5, "_elbo_rtol": 0.0001, "_max_close_runs": 4, "_sieving_size": 1, "_n_run_iter": 20, "_n_sieving_iter": 1, "_debug": true, "_out_dir": "./dat9979_K6M1000N300", "_save_progress_every_niter": 10}
diff --git a/src/experiments/var_tree_experiments/dat9979_K6M1000N300/victree.model.h5 b/src/experiments/var_tree_experiments/dat9979_K6M1000N300/victree.model.h5
diff --git a/src/experiments/var_tree_experiments/dat9979_K6M1000N300/victree.out.h5ad b/src/experiments/var_tree_experiments/dat9979_K6M1000N300/victree.out.h5ad
diff --git a/src/experiments/var_tree_experiments/dataset_description.ipynb b/src/experiments/var_tree_experiments/dataset_description.ipynb