Biological information is in the reads
Pierre Peterlongo, IRISA, Rennes, http://www.irisa.fr/symbiose/pierre_peterlongo
- Abstract
As sequencing price decreases, more and more labs sequence non model organisms. Without close or without any reference genome, the first reflex is usually to correct and to de novo assemble the reads. This is not always the best strategy for two obvious reasons: 1) de novo assembly is time and memory consuming; 2) the assembly may remove low signal information and may create chimeric sequences.
In this talk I present some methodological approach that aim at extracting biological information from raw HTS/NGS reads without the need of mapping or full de novo assembly. In particular I'll present KisSnp, a tool that finds SNP between set of reads and Mapsembler, a tool for targeting specific informations in set of raw reads.
Date: Feb 2011
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