ANGSD: Analysis of next generation Sequencing Data
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Heterozygosity: Difference between revisions
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This can either be a global estimate or a local estimate. | This can either be a global estimate or a local estimate. | ||
For diploid single samples the hetereo zygosity is simply second value in the SFS/AFS. | For diploid single samples the hetereo zygosity is simply second value in the SFS/AFS. An important aspect with this approach is that we DO NOT require to fix the major and minor. By fixing the ancestral we loop over the 3 possible derived alleles, or we can use the reference as the ancestral and fold the spectrum. | ||
=Global estimate= | |||
=Local estimate= | |||
Revision as of 16:23, 10 January 2017
The heterozygosity is the proportion of heterozygous genotypes.
This can either be a global estimate or a local estimate.
For diploid single samples the hetereo zygosity is simply second value in the SFS/AFS. An important aspect with this approach is that we DO NOT require to fix the major and minor. By fixing the ancestral we loop over the 3 possible derived alleles, or we can use the reference as the ancestral and fold the spectrum.