Chris A. Maliepaard

The paper introduces polyqtlR, a tool for QTL analysis in polyploid crops, enabling detection of QTL, exploration of allelic composition, and analysis of meiotic processes.

This paper introduces PopPoly, a method for estimating polyploid haplotypes and improving genotype dosage in F1-populations using short sequence reads and pedigree information.

The paper presents a high-quality reference genome for Rosa chinensis, elucidating genome structure and genetic basis of ornamental traits.

TriPoly improves haplotype estimation in polyploids using parent-offspring trios and Mendelian inheritance, achieving higher accuracy at lower coverage than single-individual methods.

polymapR is an R package for genetic linkage analysis and map construction in polyploid crops, handling triploid, tetraploid, and hexaploid data with preferential pairing correction.

Mapfuser integrates genetic map visualization, consensus map construction, and Marey map analysis into a standardized toolbox with interactive features and reproducibility tools.

This study evaluates polyploid haplotyping methods using a simulation pipeline, finding that sequencing depth is key and all methods struggle with higher ploidy levels.