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BMC Evolutionary Biology

, 9:200 | Cite as

Erratum to: LineageSpecificSeqgen: generating sequence data with lineage-specific variation in the proportion of variable sites

  • Liat Shavit Grievink
  • David Penny
  • Mike D Hendy
  • Barbara R Holland
Open Access
Erratum
  • 1.7k Downloads

Abstract

Correction to Shavit Grievink L, Penny D, Hendy MD, Holland BR: LineageSpecificSeqgen: generating sequence data with lineage-specific variation in the proportion of variable sites. BMC Evol Biol 2008, 8(1):317.

Correction

Since publication of our article [1], we discovered an error in the second example. For this example, we state in the paper, we used the program MrBayes [2] with the JC+I+Cov model. However, we now found that, albeit appearances, this model is not implemented in MrBayes [2]. In fact, no combination of I+Cov (e.g. HKY+I+Cov, GTR+G+I+Cov) is currently implemented in MrBayes [2]. Instead, the program ignores the I parameter, so tree reconstruction in this example was therefore effectively done using the JC+Cov model. This does not affect the conclusion of our paper that phylogenetic estimation can be misleading for sequence data simulated with lineage-specific properties.

References

  1. 1.
    Shavit Grievink L, Penny D, Hendy MD, Holland BR: LineageSpecificSeqgen: generating sequence data with lineage-specific variation in the proportion of variable sites. BMC Evol Biol. 2008, 8 (1): 317-10.1186/1471-2148-8-317.PubMedCentralCrossRefPubMedGoogle Scholar
  2. 2.
    Ronquist F, Huelsenbeck JP: MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics. 2003, 19 (12): 1572-1574. 10.1093/bioinformatics/btg180.CrossRefPubMedGoogle Scholar

Copyright information

© Grievink et al; licensee BioMed Central Ltd. 2009

This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Authors and Affiliations

  • Liat Shavit Grievink
    • 1
  • David Penny
    • 1
  • Mike D Hendy
    • 1
  • Barbara R Holland
    • 1
  1. 1.The Allan Wilson Centre for Molecular Ecology and EvolutionMassey UniversityPalmerston NorthNew Zealand

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