Correction of sequencing errors in a mixed set of reads

Leena Salmela, Helsinki University, Finland, http://www.cs.helsinki.fi/u/lmsalmel/

• Abstract
  High throughput DNA sequencing technologies produce large sets of
  short reads that may contain errors. Most sequencing technologies
  produce reads in base space, i.e. the reads are sequences of
  characters A, C, G, T, and N. The SOLiD sequencing platform codes each
  pair of bases with a color and so the reads are sequences of four
  colors. Errors in the reads present a challenge to further processing
  of the reads, like de novo assembly. Error correction aims to reduce
  the error rate of the reads. I will present an error correction tool
  based on the suffix trie for correcting substitutions, insertions, and
  deletions in a mixed set of reads produced by various sequencing
  platforms. This tool is based on the SHREC program that is aimed at
  correcting reads from SOLEXA/Illumina sequencing platform.