Publications

This research paper aims at achieving a better understanding of rule-based activity-based models, by proposing a new level of validation at the process model level in the A Learning-based Transportation Oriented Simulation System (ALBATROSS) model. To that effect, the work activity process model, which includes six decision steps, has been investigated. Each decision step is evaluated during the prediction of the individuals' schedules. There ...

In recent decades, activity-based transportation models have gained growing attention, due to their strong foundation in behavioral theory and ability to model the response of individuals to travel demand management policies. Hence, researchers have become increasingly interested in analyzing and predicting individuals' decisions about activity participation. This paper investigates the reliability and uncertainty of computational process ...

Hardware acceleration is needed to speed up DNA or protein alignment while keeping the accuracy of the alignment result high enough. The hardware resources used can be effectively optimized by using a new way of run-time reconfiguration, called parameterizable reconfiguration. In this paper, we show how a parameterizable configuration can be used to create a run-time reconfigurable implementation of the Smith-Waterman algorithm. This ...

Tremendous advances in mass spectrometric and bioinformatic approaches have expanded proteomics into the field of microbial ecology. The commonly used spectral annotation method for metaproteomics data relies on database searching, which requires sample-specific databases obtained from whole metagenome sequencing experiments. However, creating these databases is complex, time-consuming, and prone to errors, potentially biasing experimental ...

SIMSApiper is a Nextflow pipeline that creates reliable, structure-informed MSAs of thousands of protein sequences in time-frames faster than standard structure-based alignment methods. Structural information can be provided by the user or collected by the pipeline from online resources. Parallelization with sequence identity based subsets can be activated to significantly speed up the alignment process. Finally, the number of gaps in the final ...

Despite the abundance of research on knowledge discovery from moving object databases, only a limited number of studies have examined the interaction between moving point objects in space over time. This paper describes a novel approach for measuring similarity in the interaction between moving objects. The proposed approach consists of three steps. First, we transform movement data into sequences of successive qualitative relations based on the ...

The aim of this paper is to achieve a better understanding of rule-based activity-based models by proposing a new level of validation on the process model level already existing in the ALBATROSS model. To that effect the work activity process model, which includes six different decision steps, is investigated. Each decision step or facet is evaluated during the prediction of individuals’ schedules. The comportment of execution in the process ...

The article develops a new method that compares activity-travel patterns in both terms of the sequential order of activities and the shape of activity-travel trajectory in time and space. The similarity of the list of activities and their order between activity-travel patterns are computed by a sequence alignment method. The shape of activity-travel trajectory is compared between the patterns using a path similarity technique that captures the ...

The Cell Broadband Engine (BE) Architecture is a new heterogeneous multi-core architecture targeted at compute-intensive workloads. The architecture of the Cell BE has several features that are unique in high-performance general-purpose processors, most notably the extensive support for vectorization, scratch pad memories and explicit programming of direct memory accesses (DMAs) and mailbox communication. While these features strongly increase ...