The R package hypogen provides resources for population genetic analysis based on the hamlet reference genome.

The genome was published in our Inter-chromosomal coupling between vision and pigmentation genes during genomic divergence in Nature Ecology & Evolotion (DOI: 10.1038/s41559-019-0814-5).

The original genome can be downloaded from the European Nucleotide Archive (project accession number PRJEB27858).

The annotation is also deposited at dryad.

Please also look at the documentation.

hypogen depends on a bioconductor (non-CRAN) R-package. To be able to install the package successfully, the following package will also need to be installed:

install.packages("remotes")
remotes::install_bioc("rtracklayer")

To install hypogen please run:

remotes::install_github("k-hench/hypogen")