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. 2008 Dec 25:9:557.
doi: 10.1186/1471-2105-9-557.

SimHap GUI: an intuitive graphical user interface for genetic association analysis

Kim W Carter  1 , Pamela A McCaskie, Lyle J Palmer
Affiliations

SimHap GUI: an intuitive graphical user interface for genetic association analysis

Kim W Carter et al. BMC Bioinformatics. .

Abstract

Background: Researchers wishing to conduct genetic association analysis involving single nucleotide polymorphisms (SNPs) or haplotypes are often confronted with the lack of user-friendly graphical analysis tools, requiring sophisticated statistical and informatics expertise to perform relatively straightforward tasks. Tools, such as the SimHap package for the R statistics language, provide the necessary statistical operations to conduct sophisticated genetic analysis, but lacks a graphical user interface that allows anyone but a professional statistician to effectively utilise the tool.

Results: We have developed SimHap GUI, a cross-platform integrated graphical analysis tool for conducting epidemiological, single SNP and haplotype-based association analysis. SimHap GUI features a novel workflow interface that guides the user through each logical step of the analysis process, making it accessible to both novice and advanced users. This tool provides a seamless interface to the SimHap R package, while providing enhanced functionality such as sophisticated data checking, automated data conversion, and real-time estimations of haplotype simulation progress.

Conclusion: SimHap GUI provides a novel, easy-to-use, cross-platform solution for conducting a range of genetic and non-genetic association analyses. This provides a free alternative to commercial statistics packages that is specifically designed for genetic association analysis.

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Figures

Figure 1
Figure 1
Example SimHap GUI model building interface.
See this image and copyright information in PMC

References

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