Upload missingness strict-pairwise diagnostic

evaluation/query_family/missingness/strict_pairwise_diagnostic/analysis_report.md

@@ -0,0 +1,12 @@
+# Strict Pairwise Co-Missing Diagnostic
+
+- Canonical missingness family score keeps the broader profile-only structured-missingness view.
+- This auxiliary diagnostic restricts the second axis to missing-only column pairs.
+- Primary asset panels reviewed: `80`
+- Strict-overlap panels: `63`
+- Strict-overlap datasets: `10`
+
+## Status counts
+
+- `ok`: `63`
+- `not_applicable_fewer_than_2_missing_targets`: `17`

evaluation/query_family/missingness/strict_pairwise_diagnostic/data/strict_pairwise_coverage_summary.csv

@@ -0,0 +1,13 @@
+dataset_id,model_panel_count,strict_applicable_panel_count,active_missing_target_count,strict_pair_count
+c5,10,10,4,6
+c15,4,4,23,253
+c16,5,5,9,36
+c17,6,6,3,3
+c18,3,3,6,15
+c19,6,0,1,0
+m7,11,0,1,0
+m9,8,8,7,21
+m12,7,7,2,1
+n4,9,9,24,276
+n8,7,7,179,15931
+n18,4,4,168,14028

evaluation/query_family/missingness/strict_pairwise_diagnostic/data/strict_pairwise_model_summary.csv

@@ -0,0 +1,11 @@
+model_id,model_label,dataset_count_overlap,panel_count_overlap,broad_profile_score_mean,strict_pairwise_score_mean,delta_strict_minus_broad_mean
+arf,ARF,10,10,0.833368,0.832696,-0.000671
+bayesnet,BayesNet,10,10,0.789654,0.800297,0.010643
+ctgan,CTGAN,8,8,0.773566,0.770931,-0.002635
+realtabformer,RealTabFormer,9,9,0.967452,0.972457,0.005005
+tabbyflow,TabbyFlow,4,4,0.576842,0.635821,0.058979
+tabddpm,TabDDPM,3,3,0.612022,0.677081,0.065059
+tabdiff,TabDiff,1,1,0.810198,0.958476,0.148278
+tabpfgen,TabPFGen,4,4,0.668125,0.686325,0.0182
+tabsyn,TabSyn,5,5,0.630372,0.705606,0.075234
+tvae,TVAE,9,9,0.748776,0.824099,0.075323

evaluation/query_family/missingness/strict_pairwise_diagnostic/data/strict_pairwise_panel_scores.csv

@@ -0,0 +1,81 @@
+dataset_id,dataset_prefix,model_id,model_label,current_broad_profile_score,current_strength_score,strict_status,strict_pairwise_score,strict_pair_count,active_missing_target_count,delta_strict_minus_broad
+c5,c,arf,ARF,0.995742,0.982734,ok,0.990018,6,4,-0.005724000000000062
+c5,c,bayesnet,BayesNet,0.963464,0.877172,ok,0.943166,6,4,-0.020298000000000038
+c5,c,ctgan,CTGAN,0.954606,0.872582,ok,0.921428,6,4,-0.03317799999999993
+c5,c,realtabformer,RealTabFormer,0.995521,0.99189,ok,0.997049,6,4,0.0015279999999999738
+c5,c,tabbyflow,TabbyFlow,0.810198,0.786658,ok,0.991714,6,4,0.181516
+c5,c,tabddpm,TabDDPM,0.810198,0.786658,ok,0.991882,6,4,0.18168400000000007
+c5,c,tabdiff,TabDiff,0.810198,0.786658,ok,0.958476,6,4,0.14827800000000002
+c5,c,tabpfgen,TabPFGen,0.810198,0.786658,ok,0.814746,6,4,0.0045479999999999965
+c5,c,tabsyn,TabSyn,0.810198,0.786658,ok,0.997361,6,4,0.18716300000000008
+c5,c,tvae,TVAE,0.974922,0.968025,ok,0.98821,6,4,0.013288000000000078
+c15,c,arf,ARF,0.991788,0.999986,ok,0.994392,253,23,0.0026040000000000507
+c15,c,bayesnet,BayesNet,0.969949,0.999989,ok,0.978964,253,23,0.009014999999999995
+c15,c,realtabformer,RealTabFormer,0.960776,0.999972,ok,0.972579,253,23,0.011803000000000008
+c15,c,tvae,TVAE,0.627105,0.844879,ok,0.709849,253,23,0.08274399999999993
+c16,c,arf,ARF,0.984938,0.97513,ok,0.981095,36,9,-0.00384299999999993
+c16,c,bayesnet,BayesNet,0.742628,0.967498,ok,0.808952,36,9,0.06632400000000005
+c16,c,ctgan,CTGAN,0.9428,0.970629,ok,0.953994,36,9,0.011194000000000037
+c16,c,realtabformer,RealTabFormer,0.99624,0.998366,ok,0.998222,36,9,0.0019820000000000393
+c16,c,tvae,TVAE,0.868727,0.887354,ok,0.907043,36,9,0.03831600000000002
+c17,c,arf,ARF,0.984291,0.966646,ok,0.992433,3,3,0.008141999999999983
+c17,c,bayesnet,BayesNet,0.836432,0.929645,ok,0.881339,3,3,0.04490700000000003
+c17,c,ctgan,CTGAN,0.927831,0.921451,ok,0.917744,3,3,-0.010086999999999957
+c17,c,realtabformer,RealTabFormer,0.949963,0.950394,ok,0.966315,3,3,0.016352000000000033
+c17,c,tabpfgen,TabPFGen,0.836432,0.929645,ok,0.881339,3,3,0.04490700000000003
+c17,c,tvae,TVAE,0.937197,0.964701,ok,0.956649,3,3,0.019452000000000025
+c18,c,arf,ARF,0.974756,0.956776,ok,0.973726,15,6,-0.0010299999999999754
+c18,c,bayesnet,BayesNet,0.978853,0.985003,ok,0.986941,15,6,0.008087999999999984
+c18,c,realtabformer,RealTabFormer,0.857373,0.957717,ok,0.879605,15,6,0.02223199999999992
+c19,c,arf,ARF,0.999347,0.998126,not_applicable_fewer_than_2_missing_targets,,0,1,
+c19,c,bayesnet,BayesNet,0.99613,0.992106,not_applicable_fewer_than_2_missing_targets,,0,1,
+c19,c,ctgan,CTGAN,0.952687,0.975348,not_applicable_fewer_than_2_missing_targets,,0,1,
+c19,c,realtabformer,RealTabFormer,0.869641,0.922418,not_applicable_fewer_than_2_missing_targets,,0,1,
+c19,c,tabpfgen,TabPFGen,0.985958,0.991948,not_applicable_fewer_than_2_missing_targets,,0,1,
+c19,c,tvae,TVAE,0.990097,0.996318,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,arf,ARF,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,bayesnet,BayesNet,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,ctgan,CTGAN,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,forestdiffusion,ForestDiffusion,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,realtabformer,RealTabFormer,0.99396,0.997494,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,tabbyflow,TabbyFlow,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,tabddpm,TabDDPM,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,tabdiff,TabDiff,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,tabpfgen,TabPFGen,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,tabsyn,TabSyn,0.960127,0.991897,not_applicable_fewer_than_2_missing_targets,,0,1,
+m7,m,tvae,TVAE,0.599908,0.88798,not_applicable_fewer_than_2_missing_targets,,0,1,
+m9,m,arf,ARF,0.989308,0.979731,ok,0.987087,21,7,-0.0022209999999999175
+m9,m,bayesnet,BayesNet,0.99236,0.996995,ok,0.995395,21,7,0.00303500000000001
+m9,m,ctgan,CTGAN,0.962693,0.978497,ok,0.973285,21,7,0.010591999999999935
+m9,m,realtabformer,RealTabFormer,0.992816,0.996606,ok,0.994564,21,7,0.0017479999999999718
+m9,m,tabddpm,TabDDPM,0.844494,0.948405,ok,0.864584,21,7,0.020090000000000052
+m9,m,tabpfgen,TabPFGen,0.844494,0.948405,ok,0.874435,21,7,0.029940999999999995
+m9,m,tabsyn,TabSyn,0.844494,0.948405,ok,0.993593,21,7,0.14909899999999998
+m9,m,tvae,TVAE,0.954564,0.956749,ok,0.972164,21,7,0.01760000000000006
+m12,m,arf,ARF,0.459932,0.938985,ok,0.516617,1,2,0.056684999999999985
+m12,m,bayesnet,BayesNet,0.459932,0.938985,ok,0.516617,1,2,0.056684999999999985
+m12,m,ctgan,CTGAN,0.459932,0.938985,ok,0.516617,1,2,0.056684999999999985
+m12,m,realtabformer,RealTabFormer,0.99296,0.996851,ok,0.98945,1,2,-0.003509999999999902
+m12,m,tabbyflow,TabbyFlow,0.459932,0.938985,ok,0.516617,1,2,0.056684999999999985
+m12,m,tabsyn,TabSyn,0.459932,0.938985,ok,0.516617,1,2,0.056684999999999985
+m12,m,tvae,TVAE,0.457916,0.939315,ok,0.57689,1,2,0.11897400000000002
+n4,n,arf,ARF,0.181374,0.78488,ok,0.174778,276,24,-0.0065960000000000185
+n4,n,bayesnet,BayesNet,0.181374,0.78488,ok,0.174778,276,24,-0.0065960000000000185
+n4,n,ctgan,CTGAN,0.181374,0.78488,ok,0.174778,276,24,-0.0065960000000000185
+n4,n,realtabformer,RealTabFormer,0.977539,0.978472,ok,0.993973,276,24,0.01643399999999995
+n4,n,tabbyflow,TabbyFlow,0.181374,0.78488,ok,0.174778,276,24,-0.0065960000000000185
+n4,n,tabddpm,TabDDPM,0.181374,0.78488,ok,0.174778,276,24,-0.0065960000000000185
+n4,n,tabpfgen,TabPFGen,0.181374,0.78488,ok,0.174778,276,24,-0.0065960000000000185
+n4,n,tabsyn,TabSyn,0.181374,0.78488,ok,0.174778,276,24,-0.0065960000000000185
+n4,n,tvae,TVAE,0.294807,0.920332,ok,0.692068,276,24,0.39726100000000003
+n8,n,arf,ARF,0.855863,0.939062,ok,0.85802,15931,179,0.0021569999999999645
+n8,n,bayesnet,BayesNet,0.855863,0.939062,ok,0.85802,15931,179,0.0021569999999999645
+n8,n,ctgan,CTGAN,0.844267,0.93554,ok,0.850475,15931,179,0.006207999999999991
+n8,n,realtabformer,RealTabFormer,0.983877,0.953986,ok,0.960356,15931,179,-0.023521000000000014
+n8,n,tabbyflow,TabbyFlow,0.855863,0.939062,ok,0.860175,15931,179,0.0043119999999999825
+n8,n,tabsyn,TabSyn,0.855863,0.939062,ok,0.845683,15931,179,-0.010180000000000078
+n8,n,tvae,TVAE,0.698295,0.91396,ok,0.743761,15931,179,0.045466000000000006
+n18,n,arf,ARF,0.915683,0.711752,ok,0.858798,14028,168,-0.056885000000000074
+n18,n,bayesnet,BayesNet,0.915683,0.711752,ok,0.858798,14028,168,-0.056885000000000074
+n18,n,ctgan,CTGAN,0.915024,0.712821,ok,0.859124,14028,168,-0.05589999999999995
+n18,n,tvae,TVAE,0.925452,0.724042,ok,0.870256,14028,168,-0.05519600000000002

evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_coverage_bars_appendix.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_coverage_bars_appendix.tex

@@ -0,0 +1,6 @@
+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise coverage shrinkage}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_coverage_bars_appendix.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_panel_scatter_appendix.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_panel_scatter_appendix.tex

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+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise overlap scatter}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_panel_scatter_appendix.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_profile_distribution_main.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_profile_distribution_main.tex

@@ -0,0 +1,6 @@
+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Profile-only broad vs strict pairwise distribution}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_profile_distribution_main.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_vs_broad_model_dumbbell_main.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/figures/strict_pairwise_vs_broad_model_dumbbell_main.tex

@@ -0,0 +1,6 @@
+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise vs broad co-missingness}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_vs_broad_model_dumbbell_main.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/README.md

@@ -0,0 +1,46 @@
+# Strict Pairwise Co-Missing Diagnostic
+
+Auxiliary paper-facing bundle that restricts co-missingness to missing-only column pairs and reports the resulting coverage shrinkage.
+
+Primary paper-facing files:
+
+- `strict_pairwise_vs_broad_model_dumbbell_main.pdf`
+- `strict_pairwise_vs_broad_model_dumbbell_main.png`
+- `strict_pairwise_vs_broad_model_dumbbell_main.tex`
+- `strict_pairwise_profile_distribution_main.pdf`
+- `strict_pairwise_profile_distribution_main.png`
+- `strict_pairwise_profile_distribution_main.tex`
+- `strict_pairwise_panel_scatter_appendix.pdf`
+- `strict_pairwise_panel_scatter_appendix.png`
+- `strict_pairwise_panel_scatter_appendix.tex`
+- `strict_pairwise_coverage_bars_appendix.pdf`
+- `strict_pairwise_coverage_bars_appendix.png`
+- `strict_pairwise_coverage_bars_appendix.tex`
+
+Must-do bundle (`must_do/`):
+
+- `must_do/strict_pairwise_vs_broad_model_dumbbell_main.pdf`
+- `must_do/strict_pairwise_vs_broad_model_dumbbell_main.png`
+- `must_do/strict_pairwise_vs_broad_model_dumbbell_main.svg`
+- `must_do/strict_pairwise_vs_broad_model_dumbbell_main.tex`
+- `must_do/strict_pairwise_profile_distribution_main.pdf`
+- `must_do/strict_pairwise_profile_distribution_main.png`
+- `must_do/strict_pairwise_profile_distribution_main.svg`
+- `must_do/strict_pairwise_profile_distribution_main.tex`
+- `must_do/strict_pairwise_panel_scatter_appendix.pdf`
+- `must_do/strict_pairwise_panel_scatter_appendix.png`
+- `must_do/strict_pairwise_panel_scatter_appendix.svg`
+- `must_do/strict_pairwise_panel_scatter_appendix.tex`
+- `must_do/strict_pairwise_coverage_bars_appendix.pdf`
+- `must_do/strict_pairwise_coverage_bars_appendix.png`
+- `must_do/strict_pairwise_coverage_bars_appendix.svg`
+- `must_do/strict_pairwise_coverage_bars_appendix.tex`
+
+Support files:
+
+- `strict_pairwise_panel_scores.csv`
+- `strict_pairwise_model_summary.csv`
+- `strict_pairwise_coverage_summary.csv`
+- `analysis_report.md`
+- `paper_caption.txt`
+- `paper_paragraphs.md`

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/analysis_report.md

@@ -0,0 +1,12 @@
+# Strict Pairwise Co-Missing Diagnostic
+
+- Canonical missingness family score keeps the broader profile-only structured-missingness view.
+- This auxiliary diagnostic restricts the second axis to missing-only column pairs.
+- Primary asset panels reviewed: `80`
+- Strict-overlap panels: `63`
+- Strict-overlap datasets: `10`
+
+## Status counts
+
+- `ok`: `63`
+- `not_applicable_fewer_than_2_missing_targets`: `17`

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_coverage_bars_appendix.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_coverage_bars_appendix.tex

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+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise coverage shrinkage}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_coverage_bars_appendix.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_panel_scatter_appendix.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_panel_scatter_appendix.tex

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+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise overlap scatter}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_panel_scatter_appendix.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_profile_distribution_main.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_profile_distribution_main.tex

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+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Profile-only broad vs strict pairwise distribution}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_profile_distribution_main.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_vs_broad_model_dumbbell_main.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/final/must_do/strict_pairwise_vs_broad_model_dumbbell_main.tex

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+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise vs broad co-missingness}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_vs_broad_model_dumbbell_main.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/paper_caption.txt

@@ -0,0 +1 @@
+Auxiliary missingness diagnostic comparing the broad profile-only co-missing score against a stricter version that only retains pairs of columns that both exhibit meaningful native missingness. Coverage bars show that the stricter definition is more selective because datasets with only one active missing target column become inapplicable.

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/paper_paragraphs.md

@@ -0,0 +1,3 @@
+The canonical missingness family intentionally keeps a broad structured-missingness view, where the missingness of one target column can depend on the states of any other usable column.
+
+As a sensitivity analysis, we also evaluate a strict pairwise variant that only retains pairs of columns that both carry meaningful native missingness. Differences between the two reveal whether a model preserves general conditional missingness structure more easily than direct co-missing behavior among missing columns themselves.

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/strict_pairwise_coverage_bars_appendix.pdf

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evaluation/query_family/missingness/strict_pairwise_diagnostic/final/strict_pairwise_coverage_bars_appendix.tex

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+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise coverage shrinkage}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_coverage_bars_appendix.pdf}
+\end{document}

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/strict_pairwise_coverage_summary.csv

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+dataset_id,model_panel_count,strict_applicable_panel_count,active_missing_target_count,strict_pair_count
+c5,10,10,4,6
+c15,4,4,23,253
+c16,5,5,9,36
+c17,6,6,3,3
+c18,3,3,6,15
+c19,6,0,1,0
+m7,11,0,1,0
+m9,8,8,7,21
+m12,7,7,2,1
+n4,9,9,24,276
+n8,7,7,179,15931
+n18,4,4,168,14028

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/strict_pairwise_model_summary.csv

@@ -0,0 +1,11 @@
+model_id,model_label,dataset_count_overlap,panel_count_overlap,broad_profile_score_mean,strict_pairwise_score_mean,delta_strict_minus_broad_mean
+arf,ARF,10,10,0.833368,0.832696,-0.000671
+bayesnet,BayesNet,10,10,0.789654,0.800297,0.010643
+ctgan,CTGAN,8,8,0.773566,0.770931,-0.002635
+realtabformer,RealTabFormer,9,9,0.967452,0.972457,0.005005
+tabbyflow,TabbyFlow,4,4,0.576842,0.635821,0.058979
+tabddpm,TabDDPM,3,3,0.612022,0.677081,0.065059
+tabdiff,TabDiff,1,1,0.810198,0.958476,0.148278
+tabpfgen,TabPFGen,4,4,0.668125,0.686325,0.0182
+tabsyn,TabSyn,5,5,0.630372,0.705606,0.075234
+tvae,TVAE,9,9,0.748776,0.824099,0.075323

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/strict_pairwise_panel_scatter_appendix.pdf

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+version https://git-lfs.github.com/spec/v1
+oid sha256:19db41de3eecdc28a857624928d65a217fb38af8d003e1086a1c1f9f3f42bd74
+size 14884

evaluation/query_family/missingness/strict_pairwise_diagnostic/final/strict_pairwise_panel_scatter_appendix.tex

@@ -0,0 +1,6 @@
+\documentclass[border=4pt]{standalone}
+\usepackage{graphicx}
+\begin{document}
+\textbf{Strict pairwise overlap scatter}\\[0.5em]
+\includegraphics[width=\textwidth]{strict_pairwise_panel_scatter_appendix.pdf}
+\end{document}