arXiv subjects

Amedeo Napoli

Publications and source records attributed to Amedeo Napoli.

At least 19 recordsLinked to original sources

arXiv2025

A minimal base or a direct base? That is the question!

In this paper we revisit the problem of computing the closure of a set of attributes given a basis of dependencies or implications. This problem is of main interest in logics, in the relational database model, in lattice theory, and in Formal Concept Analysis as well. A basis of dependencies may have different characteristics, among which being ``minimal'', e.g., the Duquenne-Guigues Basis, or being ``direct'', e.g., the the Canonical Basis and the D-basis. Here we propose an extensive and experimental study of the impacts of minimality and directness on the closure algorithms. The results of the experiments performed on real and synthetic datasets are analyzed in depth, and suggest a different and fresh look at computing the closure of a set of attributes w.r.t. a basis of dependencies. This paper has been submitted to the International Journal of Approximate Reasoning.

cs.LO↗

arXiv2022

Experimental Study of Concise Representations of Concepts and Dependencies

In this paper we are interested in studying concise representations of concepts and dependencies, i.e., implications and association rules. Such representations are based on equivalence classes and their elements, i.e., minimal generators, minimum generators including keys and passkeys, proper premises, and pseudo-intents. All these sets of attributes are significant and well studied from the computational point of view, while their statistical properties remain to be studied. This is the purpose of this paper to study these singular attribute sets and in parallel to study how to evaluate the complexity of a dataset from an FCA point of view. In the paper we analyze the empirical distributions and the sizes of these particular attribute sets. In addition we propose several measures of data complexity, such as distributivity, linearity, size of concepts, size of minimum generators, for the analysis of real-world and synthetic datasets.

cs.DM↗

arXiv2022

Clarity: an improved gradient method for producing quality visual counterfactual explanations

Visual counterfactual explanations identify modifications to an image that would change the prediction of a classifier. We propose a set of techniques based on generative models (VAE) and a classifier ensemble directly trained in the latent space, which all together, improve the quality of the gradient required to compute visual counterfactuals. These improvements lead to a novel classification model, Clarity, which produces realistic counterfactual explanations over all images. We also present several experiments that give insights on why these techniques lead to better quality results than those in the literature. The explanations produced are competitive with the state-of-the-art and emphasize the importance of selecting a meaningful input space for training.

cs.CV↗

arXiv2022

Delta-Closure Structure for Studying Data Distribution

In this paper, we revisit pattern mining and study the distribution underlying a binary dataset thanks to the closure structure which is based on passkeys, i.e., minimum generators in equivalence classes robust to noise. We introduce $Δ$-closedness, a generalization of the closure operator, where $Δ$ measures how a closed set differs from its upper neighbors in the partial order induced by closure. A $Δ$-class of equivalence includes minimum and maximum elements and allows us to characterize the distribution underlying the data. Moreover, the set of $Δ$-classes of equivalence can be partitioned into the so-called $Δ$-closure structure. In particular, a $Δ$-class of equivalence with a high level demonstrates correlations among many attributes, which are supported by more observations when $Δ$ is large. In the experiments, we study the $Δ$-closure structure of several real-world datasets and show that this structure is very stable for large $Δ$ and does not substantially depend on the data sampling used for the analysis.

cs.LG↗

arXiv2021

Discovering alignment relations with Graph Convolutional Networks: a biomedical case study

Knowledge graphs are freely aggregated, published, and edited in the Web of data, and thus may overlap. Hence, a key task resides in aligning (or matching) their content. This task encompasses the identification, within an aggregated knowledge graph, of nodes that are equivalent, more specific, or weakly related. In this article, we propose to match nodes within a knowledge graph by (i) learning node embeddings with Graph Convolutional Networks such that similar nodes have low distances in the embedding space, and (ii) clustering nodes based on their embeddings, in order to suggest alignment relations between nodes of a same cluster. We conducted experiments with this approach on the real world application of aligning knowledge in the field of pharmacogenomics, which motivated our study. We particularly investigated the interplay between domain knowledge and GCN models with the two following focuses. First, we applied inference rules associated with domain knowledge, independently or combined, before learning node embeddings, and we measured the improvements in matching results. Second, while our GCN model is agnostic to the exact alignment relations (e.g., equivalence, weak similarity), we observed that distances in the embedding space are coherent with the ``strength'' of these different relations (e.g., smaller distances for equivalences), letting us considering clustering and distances in the embedding space as a means to suggest alignment relations in our case study.

cs.LG↗

arXiv2021

Reducing Unintended Bias of ML Models on Tabular and Textual Data

Unintended biases in machine learning (ML) models are among the major concerns that must be addressed to maintain public trust in ML. In this paper, we address process fairness of ML models that consists in reducing the dependence of models on sensitive features, without compromising their performance. We revisit the framework FixOut that is inspired in the approach "fairness through unawareness" to build fairer models. We introduce several improvements such as automating the choice of FixOut's parameters. Also, FixOut was originally proposed to improve fairness of ML models on tabular data. We also demonstrate the feasibility of FixOut's workflow for models on textual data. We present several experimental results that illustrate the fact that FixOut improves process fairness on different classification settings.

cs.LG↗

arXiv2021

A Bayesian Convolutional Neural Network for Robust Galaxy Ellipticity Regression

Cosmic shear estimation is an essential scientific goal for large galaxy surveys. It refers to the coherent distortion of distant galaxy images due to weak gravitational lensing along the line of sight. It can be used as a tracer of the matter distribution in the Universe. The unbiased estimation of the local value of the cosmic shear can be obtained via Bayesian analysis which relies on robust estimation of the galaxies ellipticity (shape) posterior distribution. This is not a simple problem as, among other things, the images may be corrupted with strong background noise. For current and coming surveys, another central issue in galaxy shape determination is the treatment of statistically dominant overlapping (blended) objects. We propose a Bayesian Convolutional Neural Network based on Monte-Carlo Dropout to reliably estimate the ellipticity of galaxies and the corresponding measurement uncertainties. We show that while a convolutional network can be trained to correctly estimate well calibrated aleatoric uncertainty, -- the uncertainty due to the presence of noise in the images -- it is unable to generate a trustworthy ellipticity distribution when exposed to previously unseen data (i.e. here, blended scenes). By introducing a Bayesian Neural Network, we show how to reliably estimate the posterior predictive distribution of ellipticities along with robust estimation of epistemic uncertainties. Experiments also show that epistemic uncertainty can detect inconsistent predictions due to unknown blended scenes.

cs.LG↗

arXiv2021

Discovery data topology with the closure structure. Theoretical and practical aspects

In this paper, we are revisiting pattern mining and especially itemset mining, which allows one to analyze binary datasets in searching for interesting and meaningful association rules and respective itemsets in an unsupervised way. While a summarization of a dataset based on a set of patterns does not provide a general and satisfying view over a dataset, we introduce a concise representation -- the closure structure -- based on closed itemsets and their minimum generators, for capturing the intrinsic content of a dataset. The closure structure allows one to understand the topology of the dataset in the whole and the inherent complexity of the data. We propose a formalization of the closure structure in terms of Formal Concept Analysis, which is well adapted to study this data topology. We present and demonstrate theoretical results, and as well, practical results using the GDPM algorithm. GDPM is rather unique in its functionality as it returns a characterization of the topology of a dataset in terms of complexity levels, highlighting the diversity and the distribution of the itemsets. Finally, a series of experiments shows how GDPM can be practically used and what can be expected from the output.

cs.DB↗

arXiv2021

A Bayesian Neural Network based on Dropout Regulation

Bayesian Neural Networks (BNN) have recently emerged in the Deep Learning world for dealing with uncertainty estimation in classification tasks, and are used in many application domains such as astrophysics, autonomous driving...BNN assume a prior over the weights of a neural network instead of point estimates, enabling in this way the estimation of both aleatoric and epistemic uncertainty of the model prediction.Moreover, a particular type of BNN, namely MC Dropout, assumes a Bernoulli distribution on the weights by using Dropout.Several attempts to optimize the dropout rate exist, e.g. using a variational approach.In this paper, we present a new method called "Dropout Regulation" (DR), which consists of automatically adjusting the dropout rate during training using a controller as used in automation.DR allows for a precise estimation of the uncertainty which is comparable to the state-of-the-art while remaining simple to implement.

cs.LG↗

arXiv2020

Mint: MDL-based approach for Mining INTeresting Numerical Pattern Sets

Pattern mining is well established in data mining research, especially for mining binary datasets. Surprisingly, there is much less work about numerical pattern mining and this research area remains under-explored. In this paper, we propose Mint, an efficient MDL-based algorithm for mining numerical datasets. The MDL principle is a robust and reliable framework widely used in pattern mining, and as well in subgroup discovery. In Mint we reuse MDL for discovering useful patterns and returning a set of non-redundant overlapping patterns with well-defined boundaries and covering meaningful groups of objects. Mint is not alone in the category of numerical pattern miners based on MDL. In the experiments presented in the paper we show that Mint outperforms competitors among which Slim and RealKrimp.

cs.DB↗

arXiv2020

Making ML models fairer through explanations: the case of LimeOut

Algorithmic decisions are now being used on a daily basis, and based on Machine Learning (ML) processes that may be complex and biased. This raises several concerns given the critical impact that biased decisions may have on individuals or on society as a whole. Not only unfair outcomes affect human rights, they also undermine public trust in ML and AI. In this paper we address fairness issues of ML models based on decision outcomes, and we show how the simple idea of "feature dropout" followed by an "ensemble approach" can improve model fairness. To illustrate, we will revisit the case of "LimeOut" that was proposed to tackle "process fairness", which measures a model's reliance on sensitive or discriminatory features. Given a classifier, a dataset and a set of sensitive features, LimeOut first assesses whether the classifier is fair by checking its reliance on sensitive features using "Lime explanations". If deemed unfair, LimeOut then applies feature dropout to obtain a pool of classifiers. These are then combined into an ensemble classifier that was empirically shown to be less dependent on sensitive features without compromising the classifier's accuracy. We present different experiments on multiple datasets and several state of the art classifiers, which show that LimeOut's classifiers improve (or at least maintain) not only process fairness but also other fairness metrics such as individual and group fairness, equal opportunity, and demographic parity.

cs.LG↗

arXiv2020

Tackling scalability issues in mining path patterns from knowledge graphs: a preliminary study

Features mined from knowledge graphs are widely used within multiple knowledge discovery tasks such as classification or fact-checking. Here, we consider a given set of vertices, called seed vertices, and focus on mining their associated neighboring vertices, paths, and, more generally, path patterns that involve classes of ontologies linked with knowledge graphs. Due to the combinatorial nature and the increasing size of real-world knowledge graphs, the task of mining these patterns immediately entails scalability issues. In this paper, we address these issues by proposing a pattern mining approach that relies on a set of constraints (e.g., support or degree thresholds) and the monotonicity property. As our motivation comes from the mining of real-world knowledge graphs, we illustrate our approach with PGxLOD, a biomedical knowledge graph.

cs.DB↗

arXiv2020

LimeOut: An Ensemble Approach To Improve Process Fairness

Artificial Intelligence and Machine Learning are becoming increasingly present in several aspects of human life, especially, those dealing with decision making. Many of these algorithmic decisions are taken without human supervision and through decision making processes that are not transparent. This raises concerns regarding the potential bias of these processes towards certain groups of society, which may entail unfair results and, possibly, violations of human rights. Dealing with such biased models is one of the major concerns to maintain the public trust. In this paper, we address the question of process or procedural fairness. More precisely, we consider the problem of making classifiers fairer by reducing their dependence on sensitive features while increasing (or, at least, maintaining) their accuracy. To achieve both, we draw inspiration from "dropout" techniques in neural based approaches, and propose a framework that relies on "feature drop-out" to tackle process fairness. We make use of "LIME Explanations" to assess a classifier's fairness and to determine the sensitive features to remove. This produces a pool of classifiers (through feature dropout) whose ensemble is shown empirically to be less dependent on sensitive features, and with improved or no impact on accuracy.

cs.LG↗

arXiv2020

Knowledge-Based Matching of $n$-ary Tuples

An increasing number of data and knowledge sources are accessible by human and software agents in the expanding Semantic Web. Sources may differ in granularity or completeness, and thus be complementary. Consequently, they should be reconciled in order to unlock the full potential of their conjoint knowledge. In particular, units should be matched within and across sources, and their level of relatedness should be classified into equivalent, more specific, or similar. This task is challenging since knowledge units can be heterogeneously represented in sources (e.g., in terms of vocabularies). In this paper, we focus on matching n-ary tuples in a knowledge base with a rule-based methodology. To alleviate heterogeneity issues, we rely on domain knowledge expressed by ontologies. We tested our method on the biomedical domain of pharmacogenomics by searching alignments among 50,435 n-ary tuples from four different real-world sources. Results highlight noteworthy agreements and particularities within and across sources.

cs.AI↗

arXiv2017

Mining Best Closed Itemsets for Projection-antimonotonic Constraints in Polynomial Time

The exponential explosion of the set of patterns is one of the main challenges in pattern mining. This challenge is approached by introducing a constraint for pattern selection. One of the first constraints proposed in pattern mining is support (frequency) of a pattern in a dataset. Frequency is an anti-monotonic function, i.e., given an infrequent pattern, all its superpatterns are not frequent. However, many other constraints for pattern selection are neither monotonic nor anti-monotonic, which makes it difficult to generate patterns satisfying these constraints. In order to deal with nonmonotonic constraints we introduce the notion of "projection antimonotonicity" and SOFIA algorithm that allow generating best patterns for a class of nonmonotonic constraints. Cosine interest, robustness, stability of closed itemsets, and the associated delta-measure are among these constraints. SOFIA starts from light descriptions of transactions in dataset (a small set of items in the case of itemset description) and then iteratively adds more information to these descriptions (more items with indication of tidsets they describe).

cs.AI↗

arXiv2015

Fast Generation of Best Interval Patterns for Nonmonotonic Constraints

In pattern mining, the main challenge is the exponential explosion of the set of patterns. Typically, to solve this problem, a constraint for pattern selection is introduced. One of the first constraints proposed in pattern mining is support (frequency) of a pattern in a dataset. Frequency is an anti-monotonic function, i.e., given an infrequent pattern, all its superpatterns are not frequent. However, many other constraints for pattern selection are not (anti-)monotonic, which makes it difficult to generate patterns satisfying these constraints. In this paper we introduce the notion of projection-antimonotonicity and $θ$-$\Sigmaøϕια$ algorithm that allows efficient generation of the best patterns for some nonmonotonic constraints. In this paper we consider stability and $Δ$-measure, which are nonmonotonic constraints, and apply them to interval tuple datasets. In the experiments, we compute best interval tuple patterns w.r.t. these measures and show the advantage of our approach over postfiltering approaches. KEYWORDS: Pattern mining, nonmonotonic constraints, interval tuple data

cs.AI↗

arXiv2015

Revisiting Pattern Structure Projections

Formal concept analysis (FCA) is a well-founded method for data analysis and has many applications in data mining. Pattern structures is an extension of FCA for dealing with complex data such as sequences or graphs. However the computational complexity of computing with pattern structures is high and projections of pattern structures were introduced for simplifying computation. In this paper we introduce o-projections of pattern structures, a generalization of projections which defines a wider class of projections preserving the properties of the original approach. Moreover, we show that o-projections form a semilattice and we discuss the correspondence between o-projections and the representation contexts of o-projected pattern structures. KEYWORDS: formal concept analysis, pattern structures, representation contexts, projections

cs.DM↗

arXiv2015

On mining complex sequential data by means of FCA and pattern structures

Nowadays data sets are available in very complex and heterogeneous ways. Mining of such data collections is essential to support many real-world applications ranging from healthcare to marketing. In this work, we focus on the analysis of "complex" sequential data by means of interesting sequential patterns. We approach the problem using the elegant mathematical framework of Formal Concept Analysis (FCA) and its extension based on "pattern structures". Pattern structures are used for mining complex data (such as sequences or graphs) and are based on a subsumption operation, which in our case is defined with respect to the partial order on sequences. We show how pattern structures along with projections (i.e., a data reduction of sequential structures), are able to enumerate more meaningful patterns and increase the computing efficiency of the approach. Finally, we show the applicability of the presented method for discovering and analyzing interesting patient patterns from a French healthcare data set on cancer. The quantitative and qualitative results (with annotations and analysis from a physician) are reported in this use case which is the main motivation for this work. Keywords: data mining; formal concept analysis; pattern structures; projections; sequences; sequential data.

cs.AI↗