sgof (version 2.0.2)

sgof-package: Multiple hypothesis testing

Description

This package implements six different methods for multi-testing problems. The Benjamini and Hochberg (1995) false discovery rate controlling procedure and its modification for positive dependence assumptions Benjamini and Yekutieli (2001), the method called Binomial SGoF proposed in Carvajal Rodríguez et al. (2009) and its conservative and bayesian versions called Conservative SGoF (de Uña Álvarez, 2011) and Bayesian SGoF (Castro Conde and de Uña Álvarez, 2013 13/06), respectively, and the BB-SGoF prodedure (Beta-Binomial SGoF, de Uña Álvarez, 2012) which is an adaptation of SGoF method for possibly correlated tests. Number of rejections, FDR and adjusted p-values are computed among other things.

encoding

UTF-8

Details

ll{ Package: sgof Type: Package Version: 2.0.2 Date: 2014-03-05 License: GPL-2 LazyLoad: yes } This package incorporates the functions BH,BY, SGoF, Binomial.SGoF, Bayesian.SGoF and BBSGoF, which call the methods aforementioned. For a complete list of functions, use library(help="sgof").

References

Benjamini Y and Hochberg Y (1995). Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing. Journal of the Royal Statistical Society Series B (Methodological) 57, 289--300. Benjamini Y and Yekutieli D (2001). The control of the false discovery rate in multiple testing under dependency. Annals of Statistics 29, 1165–-1188. Carvajal Rodríguez A, de Uña Álvarez J and Rolán Álvarez E (2009). A new multitest correction (SGoF) that increases its statistical power when increasing the number of tests. BMC Bioinformatics 10:209. Castro Conde I and de Uña Álvarez J (2013). Adjusted p-values for SGoF multitesting method. Discussion Papers in Statistics and Operation Research. Report 13/05. Statistics and OR Department. University of Vigo. https://webs.uvigo.es/depc05/reports/13_05.pdf Castro Conde I and de Uña Álvarez J (2013). Power, FDR and conservativeness of BB-SGoF method for multiple dependent tests: a simulation study. Discussion Papers in Statistics and Operation Research. Report 13/03. Statistics and OR Department. University of Vigo. http://webs.uvigo.es/depc05/reports/13_03.pdf Castro Conde I and de Uña Álvarez J (2013). SGoF multitesting method under the Bayesian paradigm. Discussion Papers in Statistics and Operation Research. Report 13/06. Statistics and OR Department. University of Vigo. https://webs.uvigo.es/depc05/reports/13_06.pdf Dalmasso C, Broet P and Moreau T (2005). A simple procedure for estimating the false discovery rate. Bioinformatics 21:660--668 de Uña Álvarez J (2011). On the statistical properties of SGoF multitesting method. Statistical Applications in Genetics and Molecular Biology, Vol. 10, Iss. 1, Article 18. de Uña Álvarez J (2012). The Beta-Binomial SGoF method for multiple dependent tests. Statistical Applications in Genetics and Molecular Biology, Vol. 11, Iss. 3, Article 14.