PolyOrigin.jl

Haplotype reconstruction in connected polyploid F1 populations

Features

• Apply to connected F1 in tetraploid (TODO for higher ploidy levels)
• Apply to SNP array and GBS data
• Robust to dosage errors in SNP array data
• Robust to dosage uncertainties in low coverage GBS data
• Robust to errors in input genetic or physical map

Installation

From the julia (>v1.5.0, 64-bit) REPL model, type ] to enter the Pkg REPL mode and run

add https://github.com/chaozhi/PolyOrigin.jl

Citing PolyOrigin.jl

If you use PolyOrigin in your analyses and publish your results, please cite the article:

*Zheng C, Amadeu RR, Munoz PR, and Endelman JB. 2021. Haplotype reconstruction in connected tetraploid F1 populations. https://doi.org/10.1093/genetics/iyab106