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SUMMARY:DNA muligene approach on HPC using RAxML software
DTSTART;VALUE=DATE-TIME:20121017T103000Z
DTEND;VALUE=DATE-TIME:20121017T110000Z
DTSTAMP;VALUE=DATE-TIME:20261011T051907Z
UID:indico-contribution-162@indico.ipb.ac.rs
DESCRIPTION:Speakers: Luka Filipovic (University of Montenegro)\nComputati
 onal phylogeny is a challenging even for the most powerful supercomputers.
  One of significant application in this area is Randomized Axelerated Maxi
 mum Likelihood (RAxML) which is used for sequential and parallel Maximum L
 ikelihood based inference of large phylogenetic trees. \n\nWe choose 5 dif
 ferent genes\, two real genes (part of  D-loop and Cytochrome b of differe
 nt European salmond fish species) both from mitochondrial genome and addit
 ional three designed genes in order to test reliability of constructed cen
 sus phylogeny tree. Two of those “fake” genes were designed with phylo
 geny information similar to phylogeny of real genes while the third one wa
 s completely different. Using of multigene option of RAxML software we tes
 t contribution of each gene (percentage of base pares in tested genes) in 
 terms of gene contribution in phylogeny tree construction. We additionally
  test contribution of gene position in analysis in terms of final results 
 of phylogeny reconstruction. \n\nThis paper will also cover scalability re
 sults of multigene tests on high-performance computers for coarse and fine
  grained parallelization using MPI\, Pthreads and hybrid version.\n\nhttps
 ://events.saifa.rs/event/291/contributions/162/
LOCATION:National Library of Serbia
URL:https://events.saifa.rs/event/291/contributions/162/
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