Phasing quality assessment in a brown layer population through family- and population-based software

• Published in: BMC genetics Vol. 20; no. 1; p. 57
• Main Authors: Frioni, N., Cavero, D., Simianer, H., Erbe, M.
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 17.07.2019; BioMed Central; BMC
• Subjects: Accuracy; Algorithms; Backup software; Beagle; Biodiversity; Breakpoints; Cattle; Chromosome Breakpoints; Chromosomes; Computational Biology - methods; Computer programs; computer software; Consortia; data collection; FImpute; Gene mapping; Genetic diversity; Genetic research; genetic variation; Genetics, Population; Genomes; Genomics; Genotype; Genotype & phenotype; Genotypes; genotyping; Haplotype phasing; Haplotypes; Identification and classification; laying hens; Linkage Disequilibrium; marker-assisted selection; Models, Genetic; parents; Pedigree; Phasing quality; Phasing software; Polymorphism, Single Nucleotide; Population; Poultry; Poultry data; progeny; Quality; Quality control; Quality management; Recombination; Scientific software; Single-nucleotide polymorphism; Software; Studies; Technology application; Germany; Phasing software; Poultry data; FImpute; Haplotype phasing; Beagle; Phasing quality

Haplotype data contains more information than genotype data and provides possibilities such as imputing low frequency variants, inferring points of recombination, detecting recurrent mutations, mapping linkage disequilibrium (LD), studying selection signatures, estimating IBD probabilities, etc. In...