期刊
MOLECULAR ECOLOGY RESOURCES
卷 13, 期 5, 页码 946-952出版社
WILEY
DOI: 10.1111/1755-0998.12129
关键词
F-ST; genetic distance; genomic relationship matrix; polyploidy
资金
- Victorian Department of Primary Industries
- Geoffrey Gardiner Foundation
- Meat and Livestock Australia
- New Zealand Agriseeds, Christchurch, New Zealand, through the Dairy Futures Cooperative Research Centre
- Australian Postgraduate Award
- Dairy Futures CRC scholarship
Statistical Analysis of Mixed-Ploidy Populations (StAMPP) is a freely available R package for calculation of population structure and differentiation based on single nucleotide polymorphism (SNP) genotype data from populations of any ploidy level, and/or mixed-ploidy levels. StAMPP provides an advance on previous similar software packages, due to an ability to calculate pairwise F-ST values along with confidence intervals, Nei's genetic distance and genomic relationship matrixes from data sets of mixed-ploidy level. The software code is designed to efficiently handle analysis of large genotypic data sets that are typically generated by high-throughput genotyping platforms. Population differentiation studies using StAMPP are broadly applicable to studies of molecular ecology and conservation genetics, as well as animal and plant breeding.
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