Qploidy2

R package
Ploidy
Aneuploidy
CNV
DArTag
Ploidy, aneuploidy, and large-scale copy-number estimation from genotyping data.

Qploidy2 is designed for large-scale copy-number variation, ploidy, and aneuploidy estimation using genotyping-platform data. Its workflow includes methods based on allele-ratio information and Hidden Markov Models.

R packagePloidy + CNVHMM

Start here

# Development version
remotes::install_github("Breeding-Insight/Qploidy2")

Source code Alfalfa tutorial

Good fit for

  • Ploidy estimation
  • Aneuploidy detection
  • Large-scale copy-number analysis from marker data
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