Now showing items 1-6 of 6

    • A user-friendly web portal for T-Coffee on supercomputers 

      Rius Torrentó, Josep Maria; Cores Prado, Fernando; Solsona Tehàs, Francesc; Hemert, Jano van; Koetsier, Jos; Notredame, Cedric (BioMed Central, 2011)
      Background: Parallel T-Coffee (PTC) was the first parallel implementation of the T-Coffee multiple sequence alignment tool. It is based on MPI and RMA mechanisms. Its purpose is to reduce the execution time of the large-scale ...
    • Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud 

      Di Tommaso, Paolo; Orobitg Cortada, Miquel; Guirado Fernández, Fernando; Cores Prado, Fernando; Espinosa, Toni; Notredame, Cedric (Oxford University Press, 2010)
      Summary: We present the first parallel implementation of the T-Coffee consistency-based multiple aligner. We benchmark it on the Amazon Elastic Cloud (EC2) and show that the parallelization procedure is reasonably ...
    • Exploiting parallelism on progressive alignment methods 

      Orobitg Cortada, Miquel; Guirado Fernández, Fernando; Notredame, Cedric; Cores Prado, Fernando (Springer Verlag, 2011)
      Multiple Sequence Alignment (MSA) constitutes an extremely powerful tool for important biological applications such as phylogenetic analysis, identification of conserved motifs and domains and structure prediction. In ...
    • High Performance computing improvements on bioinformatics consistency-based multiple sequence alignment tools 

      Orobitg Cortada, Miquel; Guirado Fernández, Fernando; Cores Prado, Fernando; Lladós Segura, Jordi; Notredame, Cedric (Elsevier, 2014-10-08)
      Multiple Sequence Alignment (MSA) is essential for a wide range of applications in Bioinformatics. Traditionally, the alignment accuracy was the main metric used to evaluate the goodness of MSA tools. However, with the ...
    • Improving multiple sequence alignment biological accuracy through genetic algorithms 

      Orobitg Cortada, Miquel; Cores Prado, Fernando; Guirado Fernández, Fernando; Roig Mateu, Concepció; Notredame, Cedric (Springer, 2013)
      Accuracy on multiple sequence alignments (MSA) is of great significance for such important biological applications as evolution and phylogenetic analysis, homology and domain structure prediction. In such analyses, alignment ...
    • Recovering accuracy methods for scalable consistency library 

      Lladós Segura, Jordi; Guirado Fernández, Fernando; Cores Prado, Fernando; Lérida Monsó, Josep Lluís; Notredame, Cedric (Springer Verlag, 2015-05-01)
      Multiple sequence alignment (MSA) is crucial for high-throughput next generation sequencing applications. Large-scale alignments with thousands of sequences are necessary for these applications. However, the quality of the ...