A tool to detect single nucleotide polymorphism (SNP) and to reconstruct haplotypes of a diploid organism, i.e., it can identify SNPs originating from each parent. The linkSNPs algorithm requires, on average, five heterozygous sites per kilobase of sequence.
Genetics; DNA polymorphism
Sasaki E, Sugino RP, Innan H "The linkage method: a novel approach for SNP detection and haplotype reconstruction from a single diploid individual using next-generation sequence data." Mol Biol Evol. 2013 Sep;30(9):2187-96. 31. https://doi.org/10.1093/molbev/mst103
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