CGHpower

CGHpower: exploring sample size calculations for chromosomal copy number experiments. Results: Here we explore power calculations for aCGH experiments comparing two groups. In a pilot experiment CGHpower estimates the biological diversity between groups and provides a statistical framework for estimating average power as a function of sample size. As the method requires pilot data, it can be used either in the planning stage of larger studies or in estimating the power achieved in past experiments. Conclusions: The proposed method relies on certain assumptions. According to our evaluation with public and simulated data sets, they do not always hold true. Violation of the assumptions typically leads to unreliable sample size estimates. Despite its limitations, this method is, at least to our knowledge, the only one currently available for performing sample size calculations in the context of aCGH. Moreover, the implementation of the method provides diagnostic plots that allow critical assessment of the assumptions on which it is based and hence on the feasibility and reliability of the sample size calculations in each case. The CGHpower web application and the program outputs from evaluation data sets can be freely accessed at http://www.cangem.org/cghpower/

References in zbMATH (referenced in 2 articles )

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  1. van Iterson, Maarten; van de Wiel, Mark A.; Boer, Judith M.; de Menezes, Renée X.: General power and sample size calculations for high-dimensional genomic data (2013)
  2. Scheinin, Ilari; Ferreira, Jose A.; Knuutila, Sakari; Meijer, Gerrit; Van De Wiel, Mark A.; Ylstra, Bauke: Cghpower: exploring sample size calculations for chromosomal copy number experiments (2010) ioport