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aalbrechtsen edited this page Sep 7, 2026
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Kim SY, Lohmueller KE, Albrechtsen A, Li Y, Korneliussen T, Tian G, Grarup N, Jiang T, Andersen G, Witte D, et al., 2011. Estimation of allele frequency and association mapping using next-generation sequencing data. BMC Bioinformatics 35:231.
@Article{pmid21663684,
Author="Kim, S. Y. and Lohmueller, K. E. and Albrechtsen, A. and Li, Y. and Korneliussen, T. and Tian, G. and Grarup, N. and Jiang, T. and Andersen, G. and Witte, D. and Jorgensen, T. and Hansen, T. and Pedersen, O. and Wang, J. and Nielsen, R. ",
Title="{{E}stimation of allele frequency and association mapping using next-generation sequencing data}",
Journal="BMC Bioinformatics",
Year="2011",
Volume="12",
Pages="231"
}
doi:10.1186/1471-2105-12-231
Pages
Population genetics
Population structure
- Admixture
- Fst
- ABBABABA (D-stat)
- ABBABABA (multipop)
- Population branch statistics (pbs)
- PCA
- PCA (sampling approach)
- Linkage disequilibrium
Medical genetics
IBD/IBS
Summaries
SNPs and genotypes
- Genotypes likelihoods
- Major and Minor
- Allele frequencies
- Genotype calling
- Haploid calling
- SNP Calling
Output
Misc/util programs
Program structure
About ANGSD