Articles
Examples
All examples are in base R, not tidyverse.
- Quick start example 1: Simulated data
Install sequoia, simulate data, run parentage assignment and full pedigree reconstruction.
- Quick start example 2: Real data
How to prepare data for sequoia.
- PedCompare Example (Griffin Pedigree)
Compare the genetically inferred pedigree to a field/paper-records pedigree
More info on
- Genotyping errors
Error patterns; per-locus vs per-allele error rate
- Mendelian Inheritance
Mendelian inheritance probability, counting opposing homozygous (OH) loci, and calculating threshold OH value for parentage assignment.
- Classification of pairs using likelihoods
Use of function
CalcPairLL(), e.g. when assignment rate withsequoia()is low- Using mitochondrial haplotypes
Use of option
mtSame