Pedigree Inference from SNPs
Birth year probabilities
Maximum Number of Mismatches
Calculate OH and LLR for a pedigree
Calculate Likelihoods for Alternative Relationships
Calculate assignment probabilities
Calculate Pedigree Relatedness
Check Genotype Matrix
Compare Pairwise Relationships
Count opposing homozygous SNPs between pairs of individuals
Compare Dyads (DEPRECATED)
Convert Genotyping Error Rates from per-allele to per-locus
Generate Genotyping Error Matrix
Confidence Probabilities
Assign Family IDs
Convert Genotype Data
Get ancestors
Assignability of Reference Pedigree
Get descendants
Count Generations
LLR-age from Ageprior Matrix
Find Putative Relatives
Matrix with Pairwise Relationships
Extract Sex and Birth Year from PLINK File
transform log-likelihoods to probabilities
Age Priors
Simulate Genotyping Errors
Compare Two Pedigrees
Fix Pedigree
Back-transform IDs
Plot Age Priors
Plot Pair Log10-Likelihoods
Visualise PedCompare Output
Plot proportion of individuals that has a parent assigned
Plot Pairwise Relationships
Plot Summary Overview of sequoia Output
Pedigree Reconstruction
Simulate Genotypes
SNP Summary Statistics
Summarise Sequoia Output or Pedigree
Write Data to a File Column-wise
Write Sequoia Output to File
Multi-generational pedigree inference from incomplete data on hundreds of SNPs, including parentage assignment and sibship clustering. See Huisman (2017) (<DOI:10.1111/1755-0998.12665>) for more information.