Alternativer Identifier:
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Verwandter Identifier:
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Ersteller/in:
Bach, Jakob https://orcid.org/0000-0003-0301-2798 [Bach, Jakob]
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Titel:
Experimental Data for the Paper "Using Constraints to Discover Sparse and Alternative Subgroup Descriptions"
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(Abstract) These are the experimental data for the paper> Bach, Jakob. "Using Constraints to Discover Sparse and Alternative Subgroup Descriptions" published on [arXiv](https://arxiv.org/) in 2024. You can find the paper [here](https://doi.org/10.48550/arXiv.2406.01411) and the code [here](https://github.com/Jakob-Bach/Constrained-Subgroup-Discovery). See the `README` for details. The datasets used in our study (which we also provide here) originate from [PMLB](https://epistasislab.github.io/pmlb/). The corresponding [GitHub repository](https://github.com/EpistasisLab/pmlb) is MIT-licensed ((c) 2016 Epistasis Lab at UPenn). Please see the file `LICENSE` in the folder `datasets/` for the license text.
(Technical Remarks) # Experimental Data for the Paper "Using Constraints to Discover Sparse and Alternative Subgroup Descriptions" These are the experimental data for the paper> Bach, Jakob. "Using Constraints to Discover Sparse and Alternative Subgroup Descriptions" published at [arXiv](https://arxiv.org/) in 2024. If we create further versions of this paper in the future, these experimental data may cover them as well. Check our [GitHub repository](https://github.com/Jakob-Bach/Constrained-Subgroup-Discovery) for the code and instructions to reproduce the experiments. We obtained the experimental results on a server with an `AMD EPYC 7551` CPU (32 physical cores, base clock of 2.0 GHz) and 160 GB RAM. The operating system was `Ubuntu 20.04.6 LTS`. The Python version was `3.8`. With this configuration, running the experimental pipeline (`run_experiments.py`) took about 34 hours. The commit hash for the last run of the experimental pipeline (`run_experiments.py`) is [0a57bcd529](https://github.com/Jakob-Bach/Constrained-Subgroup-Discovery/tree/0a57bcd52938dce6285e8113d777360c2b17f30f). The commit hash for the last run of the evaluation pipeline (`run_evaluation_arxiv.py`) is [48f2465b4c](https://github.com/Jakob-Bach/Constrained-Subgroup-Discovery/tree/48f2465b4cabf2d6657e4ff4b73c28c240d0b883). We also tagged both commits (`run-2024-05-13` and `evaluation-2024-05-15`). The experimental data are stored in two folders, `datasets/` and `results/`. Further, the console output of `run_evaluation_arxiv.py` is stored in `Evaluation_console_output.txt` (manually copied from the console to a file). In the following, we describe the structure and content of each data file. ## `datasets/` These are the input data for the experimental pipeline `run_experiments.py`, i.e., the prediction datasets. The folder contains one overview file, one license file, and two files for each of the 27 datasets. The original datasets were downloaded from [PMLB](https://epistasislab.github.io/pmlb/) with the script `prepare_datasets.py`. Note that we do not own the copyright for these datasets. However, the [GitHub repository of PMLB](https://github.com/EpistasisLab/pmlb), which stores the original datasets, is MIT-licensed ((c) 2016 Epistasis Lab at UPenn). Thus, we include the file `LICENSE` from that repository. After downloading from `PMLB`, we split each dataset into the feature part (`_X.csv`) and the target part (`_y.csv`), which we save separately. Both file types are CSVs that only contain numeric values (categorical features are ordinally encoded in `PMLB`) except for the column names. There are no missing values. Each row corresponds to a data object (= instance, sample), and each column either corresponds to a feature (in `_X`) or the target (in `_y`). The first line in each `_X` file contains the names of the features as strings; for `_y` files, there is only one column, always named `target`. For the prediction target, we ensured that the minority (i.e., less frequent) class is the positive class (i.e., has the class label `1`), so the labeling may differ from PMLB. `_dataset_overview.csv` contains meta-data for the datasets, like the number of instances and features. ## `results/` These are the output data of the experimental pipeline in the form of CSVs, produced by the script `run_experiments.py`. `_results.csv` contains all results merged into one file and acts as input for the script `run_evaluation_arxiv.py`. The remaining files are subsets of the results, as the experimental pipeline parallelizes over 27 datasets, 5 cross-validation folds, and 6 subgroup-discovery methods. Thus, there are `27 * 5 * 6 = 810` files containing subsets of the results. Each row in a result file corresponds to one subgroup. One can identify individual subgroup-discovery runs with a combination of multiple columns, i.e.: - dataset `dataset_name` - cross-validation fold `split_idx` - subgroup-discovery method `sd_name` - feature-cardinality threshold `param.k` (missing value if no feature-cardinality constraint) - solver timeout `param.timeout` (missing value if not solver-based search) - number of alternatives `param.a` (missing value if only original subgroup searched) - dissimilarity threshold `param.tau_abs` (missing value if only original subgroup searched) For each value combination of these seven columns, there is either one subgroup (search for original subgroups) or six subgroups (search for alternative subgroup descriptions, in which case the column `alt.number` identifies individual subgroups within a search run). Further, note that the last four mentioned columns contain missing values, which should be treated as a category on their own. In particular, if you use `groupby()` from `pandas` for analyzing the results and you want to include any of the last four mentioned columns in the grouping, you should either fill in the missing values with an (arbitrary) placeholder value or use `dropna=False`, because the grouping (by default) ignores the rows with missing values in the group columns otherwise. The remaining columns represent results and evaluation metrics. In detail, all result files contain the following columns: - `objective_value` (float in `[-0.25, 1]` + missing values): Objective value of the subgroup-discovery method on the training set. WRAcc when searching original subgroups and normalized Hamming similarity when searching alternative subgroup descriptions. Missing value for *MORS* as the subgroup-discovery method, since *MORS* does not explicitly compute an objective when searching for subgroups. - `optimization_status` (string, 2 different values + missing values): For *SMT*, `sat` if optimal solution found and `unknown` if timeout. Missing value for all other subgroup-discovery methods (which do not use solver timeouts). - `optimization_time` (non-negative float): The runtime of optimization in the subgroup-discovery method, i.e., without pre- and post-processing steps. - `fitting_time` (non-negative float): The complete runtime of the subgroup-discovery method (as reported in the paper), i.e., including pre- and post-processing steps. Very similar to `optimization_time` except for *SMT* as the subgroup-discovery method, which may spend a considerable amount of time formulating the optimization problem. - `train_wracc` (float in `[-0.25, 0.25]`): The weighted relative accuracy (WRAcc) of the subgroup description on the training set. - `test_wracc` (float in `[-0.25, 0.25]`): The weighted relative accuracy (WRAcc) of the subgroup description on the test set. - `train_nwracc` (float in `[-1, 1]`): The normalized weighted relative accuracy (WRAcc divided by its dataset-dependent maximum) of the subgroup description on the training set. - `test_nwracc` (float in `[-1, 1]`): The normalized weighted relative accuracy (WRAcc divided by its dataset-dependent maximum) of the subgroup description on the test set. - `box_lbs` (list of floats, e.g., `[-inf, 0, -inf, -2, 8]`): The lower bounds for each feature in the subgroup description. Negative infinity if a feature's lower bound did not exclude any data objects from the subgroup. - `box_ubs` (list of floats, e.g., `[inf, 10, inf, 5, 9]`): The upper bounds for each feature in the subgroup description. Positive infinity if a feature's upper bound did not exclude any data objects from the subgroup. - `selected_feature_idxs` (list of non-negative ints, e.g., `[0, 4, 5]`): The indices (starting from 0) of the features selected (= restricted) in the subgroup description. Is an empty list, i.e., `[]`, if no feature was restricted (thus, the subgroup contains all data objects). - `dataset_name` (string, 27 different values): The name of the `PMLB` dataset used for subgroup discovery. - `split_idx` (int in `[0, 4]`): The index of the cross-validation fold of the dataset used for subgroup discovery. - `sd_name` (string, 6 different values): The name of the subgroup-discovery method (`Beam`, `BI`, `MORS`, `PRIM`, `Random`, or `SMT`). - `param.k` (int in `[1, 5]` + missing values): The feature-cardinality threshold for subgroup descriptions. Missing value if unconstrained subgroup discovery. Always `3` if alternative subgroup descriptions searched. - `param.timeout` (int in `[1, 2048]` + missing values): For *SMT*, solver timeout (in seconds) for optimization (not including formulation of the optimization problem). Missing value for all other subgroup-discovery methods. - `alt.hamming` (float in `[0, 1]` + missing values): Normalized Hamming similarity between the current subgroup (original or alternative) and the original subgroup if alternative subgroup descriptions searched. Missing value if only original subgroup searched. - `alt.jaccard` (float in `[0, 1]` + missing values): Jaccard similarity between the current subgroup (original or alternative) and the original subgroup if alternative subgroup descriptions searched. Missing value if only original subgroup searched. - `alt.number` (int in `[0, 5]` + missing values): The number of the current alternative if alternative subgroup descriptions searched. Missing value if only original subgroup searched. Thus, original subgroups either have `0` or a missing value in this column (i.e., for experimental settings where alternative subgroup descriptions searched, there is no separate search for an original subgroup, only a joint sequential search for original and alternatives). - `param.a` (int with value `5` + missing values): The number of desired alternative subgroup descriptions, not counting the original (zeroth) subgroup description. Missing value if only original subgroup searched. - `param.tau_abs` (int in `[1, 3]` + missing values) The dissimilarity threshold for alternatives, corresponding to the absolute number of features that have to be deselected from the original subgroup description and each prior alternative. Missing value if only original subgroup searched. You can easily read in any of the result files with `pandas`: ```python import pandas as pd results = pd.read_csv('results/_results.csv') ``` All result files are comma-separated and contain plain numbers and unquoted strings, apart from the columns `box_lbs`, `box_ubs`, and `selected_feature_idxs` (which represents lists and whose values are quoted except for empty lists). The first line in each result file contains the column names. You can use the following code to make sure that the lists of feature indices are treated as such (rather than strings): ```python import ast results['selected_feature_idxs'] = results['selected_feature_idxs'].apply(ast.literal_eval) ``` Note that this conversion does not work for `box_lbs` and `box_ubs`, where the lists not only contain ordinary numbers but also `-inf`, and `inf`; see [this *Stack Overflow* post](https://stackoverflow.com/questions/64773836/error-converting-string-list-to-list-when-it-contains-inf) for potential alternatives.
Schlagworte:
subgroup discovery
alternatives
constraints
satisfiability modulo theories
explainability
interpretability
XAI
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