Abstract
Allelic count is an important measure of genetic diversity. However, it is a function of sample size and its estimation and interpretation can be biased. Previously, we introduced a random permutation method named FPTest to test the differences in allelic count among oat germplasm groups of variable sample size (Fu et al., Crop Sci 43:1989–1995, 2003) and published a SAS routine for it to facilitate its application (Fu, Mol Ecol Resour 10:398–392, 2010). Here we present an R version of FPTest called FPTestR. This R version considers six types of large marker data and generates four to five output files, making the test more accessible and useful in genetic diversity analysis.
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Acknowledgements
The authors thank Dr. Aron Eklund for his assistance with the R package Squash and three anonymous reviewers for their helpful comments on the early version of the manuscript. This research was supported by an A-Base research project of Agriculture and Agri-Food Canada to YBF and National Science and Technology Program of China (2012BAD21B03) and the China Scholarship Council Postdoctoral Abroad Grant to M-HY.
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Yang, MH., Fu, YB. An R version of FPTest for testing differences in allelic count. Conservation Genet Resour 9, 313–318 (2017). https://doi.org/10.1007/s12686-016-0644-6
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DOI: https://doi.org/10.1007/s12686-016-0644-6