Related papers: MinMax-Profiles: A Unifying View of Common Interva…
In this paper we explain how to easily compute gene clusters, formalized by classical or generalized nested common or conserved intervals, between a set of K genomes represented as K permutations. A b-nested common (resp. conserved)…
Common intervals have been defined as a modelisation of gene clusters in genomes represented either as permutations or as sequences. Whereas optimal algorithms for finding common intervals in permutations exist even for an arbitrary number…
In 1969, Roberts introduced proper and unit interval graphs and proved that these classes are equal. Natural generalizations of unit interval graphs called $k$-length interval graphs were considered in which the number of different lengths…
Given an elementary chain of vertex set V, seen as a labelling of V by the set {1, ...,n=|V|}, and another discrete structure over $V$, say a graph G, the problem of common intervals is to compute the induced subgraphs G[I], such that $I$…
This paper deals with the problem of finding, for a given graph and a given natural number k, a subgraph of k nodes with a maximum number of edges. This problem is known as the k-cluster problem and it is NP-hard on general graphs as well…
In the Interval Completion problem we are given a graph G and an integer k, and the task is to turn G using at most k edge additions into an interval graph, i.e., a graph admitting an intersection model of intervals on a line. Motivated by…
In the Proper Interval Completion problem we are given a graph G and an integer k, and the task is to turn G using at most k edge additions into a proper interval graph, i.e., a graph admitting an intersection model of equal-length…
Indexing intervals is a fundamental problem, finding a wide range of applications. Recent work on managing large collections of intervals in main memory focused on overlap joins and temporal aggregation problems. In this paper, we propose…
In ongoing work to define a principled method for syntenic block discovery and structuring, work based on homology-derived constraints and a generalization of common intervals, we faced a fundamental computational problem: how to determine…
In the classical interval scheduling type of problems, a set of $n$ jobs, characterized by their start and end time, need to be executed by a set of machines, under various constraints. In this paper we study a new variant in which the jobs…
The NP-complete Permutation Pattern Matching problem asks whether a $k$-permutation $P$ is contained in a $n$-permutation $T$ as a pattern. This is the case if there exists an order-preserving embedding of $P$ into $T$. In this paper, we…
Using recurrences gotten from the Apagodu-Zeilberger Multivariate Almkvist-Zeilberger algorithm we present a linear-time, and constant-space, algorithm to compute the general mixed moments of the k-variate general normal distribution, with…
Permutation patterns and pattern avoidance have been intensively studied in combinatorics and computer science, going back at least to the seminal work of Knuth on stack-sorting (1968). Perhaps the most natural algorithmic question in this…
We study a generalization of the recently introduced order-preserving pattern matching, where instead of looking for an exact copy of the pattern, we only require that the relative order between the elements is the same. In our variant, we…
Permutation patterns and pattern avoidance have been intensively studied in combinatorics and computer science, going back at least to the seminal work of Knuth on stack-sorting (1968). Perhaps the most natural algorithmic question in this…
The classical persistence algorithm computes the unique decomposition of a persistence module implicitly given by an input simplicial filtration. Based on matrix reduction, this algorithm is a cornerstone of the emergent area of topological…
In this paper, a novel feature selection approach for supervised interval valued features is proposed. The proposed approach takes care of selecting the class specific features through interval K-Means clustering. The kernel of K-Means…
Learning linear combinations of multiple kernels is an appealing strategy when the right choice of features is unknown. Previous approaches to multiple kernel learning (MKL) promote sparse kernel combinations to support interpretability and…
Interval and proper interval graphs are very well-known graph classes, for which there is a wide literature. As a consequence, some generalizations of interval graphs have been proposed, in which graphs in general are expressed in terms of…
We present a new algorithm for solving a polynomial program P based on the recent "joint + marginal" approach of the first author for, parametric optimization. The idea is to first consider the variable x1 as a parameter and solve the…