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Research Article

Mapping Accuracy of Short Reads from Massively Parallel Sequencing and the Implications for Quantitative Expression Profiling

  • Nicola Palmieri,

    Affiliation: Institut für Populationsgenetik, Veterinärmedizinische Universität Wien, Vienna, Austria

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  • Christian Schlötterer mail

    christian.schloetterer@vu-wien.ac.at

    Affiliation: Institut für Populationsgenetik, Veterinärmedizinische Universität Wien, Vienna, Austria

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  • Published: July 28, 2009
  • DOI: 10.1371/journal.pone.0006323

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Publisher's Note: correction 14.9.09

Posted by schlotc on 14 Sep 2009 at 13:05 GMT

To keep the results most comparable as possible we set for each program only the essential parameters and assigned 3 mismatches to the programs that needed this parameter (Bowtie, SeqMap, MAQ), which is also the maximum number of mismatches allowed by these three programs.
http://plosone.org/article/info:doi/10.1371/journal.pone.0006323#article1.body1.sec4.sec4.p1

To keep the results most comparable as possible we set for each program only the essential parameters and assigned 3 mismatches in the read (for SeqMap), or in the seed (for Bowtie and MAQ).

No competing interests declared.