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

Nicola Palmieri; Christian Schlötterer

doi:10.1371/journal.pone.0006323

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Open Access

Peer-reviewed

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
⨯
Christian Schlötterer

* E-mail: christian.schloetterer@vu-wien.ac.at

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

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

Nicola Palmieri,
Christian Schlötterer

Published: July 28, 2009
https://doi.org/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.

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

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

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Publisher's Note: correction 14.9.09

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