├── .github └── workflows │ └── unit_test.yml ├── .gitignore ├── .readthedocs.yaml ├── CODE_OF_CONDUCT.md ├── CONTRIBUTING.md ├── LICENSE.txt ├── README.md ├── benchmarks ├── benchmarks.ipynb ├── gglasso_benchmark.py ├── plots.py ├── regain_benchmark.py ├── setup_benchmark.py ├── sklearn_benchmark.py └── utilita.py ├── data ├── microbiome │ ├── OTU_data_1.csv │ ├── OTU_data_2.csv │ ├── OTU_data_3.csv │ ├── OTU_data_4.csv │ └── OTU_data_5.csv ├── soil │ ├── SE_lowrank.rds │ ├── original │ │ ├── 238_otu_table.biom │ │ ├── 88soils.biom.qza │ │ ├── 88soils_modified_metadata.txt │ │ └── ph_morton.xlsx │ └── processed │ │ ├── ph.csv │ │ └── soil_116.csv └── synthetic │ ├── bm2000.csv │ └── bm5000.csv ├── docs ├── Makefile ├── make.bat └── source │ ├── conf.py │ ├── getting-started.rst │ ├── index.rst │ ├── math-description.rst │ ├── pictures │ ├── SLRDecomp.pdf │ ├── SLRDecomp.png │ ├── combined.png │ ├── combined2.png │ ├── lowrank.png │ ├── lowrank_K.png │ ├── obs.png │ ├── obs_K.png │ ├── runtime_accuracy_005.png │ ├── runtime_accuracy_05.png │ ├── runtime_merged.pdf │ ├── runtime_merged.png │ ├── sparse.png │ └── sparse_K.png │ ├── problem-object.rst │ ├── solvers-doc.rst │ └── solvers-overview.rst ├── environment.yml ├── examples ├── README.txt ├── dev │ ├── example_microbiome_ggl.py │ ├── functional_gl │ │ ├── fda_example.ipynb │ │ └── scikit_fda_testing.ipynb │ ├── ggl_runtime │ │ └── exp_runtime_ggl.py │ ├── joint_estimation.py │ └── sgl_start_point │ │ └── exp_start_point.py ├── fgl_powerlaw │ └── exp_powerlaw_fgl.py ├── gallery_helper.py ├── ggl_powerlaw │ └── exp_powerlaw_ggl.py ├── plot_basic_example.py ├── plot_benchmarks.py ├── plot_fsgl_example.py ├── plot_nonconforming_ggl.py ├── plot_powerlaw_fgl.py ├── plot_powerlaw_ggl.py ├── plot_soil_example.py ├── plots │ ├── fgl_powerlaw │ │ ├── block_0_evolution.pdf │ │ ├── block_2_evolution.pdf │ │ ├── deviation.pdf │ │ └── surface.pdf │ ├── ggl_powerlaw │ │ ├── diff_fpr_tpr.pdf │ │ ├── error.pdf │ │ ├── fpr_tpr.pdf │ │ ├── gamma.pdf │ │ ├── surface.pdf │ │ └── truth_heatmap.pdf │ └── ggl_runtime │ │ └── runtimeN.pdf └── soil │ ├── ph_soil_example.ipynb │ └── prepare_soil_data.ipynb ├── paper ├── paper.bib └── paper.md ├── pyproject.toml ├── readthedocs-requirements.txt ├── requirements.txt ├── setup.py ├── src └── gglasso │ ├── __init__.py │ ├── helper │ ├── __init__.py │ ├── basic_linalg.py │ ├── data_generation.py │ ├── experiment_helper.py │ ├── ext_admm_helper.py │ ├── model_selection.py │ └── utils.py │ ├── problem.py │ └── solver │ ├── __init__.py │ ├── admm_solver.py │ ├── ext_admm_solver.py │ ├── fgl_helper.py │ ├── functional_sgl_admm.py │ ├── ggl_helper.py │ ├── old │ └── ppdna_unjitted.py │ ├── ppdna_solver.py │ └── single_admm_solver.py └── tests ├── __init__.py ├── test_func_gl.py ├── test_mu_choice.py ├── test_problem.py ├── test_solvers.py └── test_utils.py /.github/workflows/unit_test.yml: -------------------------------------------------------------------------------- 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