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UID:1043@i2m.univ-amu.fr
DTSTART;TZID=Europe/Paris:20160127T110000
DTEND;TZID=Europe/Paris:20160127T120000
DTSTAMP:20160112T100000Z
URL:https://www.i2m.univ-amu.fr/evenements/correction-of-long-sequencing-r
 eads-a-novel-approach/
SUMMARY: (...): Correction of long sequencing reads: a novel approach
DESCRIPTION:: High-throughput DNA and RNA sequencing has become a routine e
 xperiment in molecular biology and life sciences in general. It is increas
 ingly used in the hospital as a key procedure of personalized medicine. Co
 mpared to the second generation\, third generation sequencing technologies
  produce longer reads with comparatively lower throughput and higher error
  rate. Those errors include substitutions\, indels\, and they hinder or at
  least complicate downstream analysis like mapping or de novo assembly. Ho
 wever\, these long read data are often used in conjunction with short read
 s of the 2nd generation.I will present a hybrid strategy for correcting th
 e long reads using the short reads that we introduced last year. Unlike ex
 isting error correction tool\, ours\, called LoRDEC\, avoids the alignment
  of short reads on long reads\, which is computationally very intensive. I
 nstead\, it takes advantage of a succinct graph to represent the short rea
 ds\, and compares the long reads to paths in the graph. Experiments show t
 hat LoRDEC outperforms existing methods in running time and memory while a
 chieving a comparable correction performance. In conclusion\, i will comme
 nt on the impact of read error correction.http://www.lirmm.fr/~rivals/
CATEGORIES:Séminaire,Mathématiques-Évolution-Biologie
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