syntR is an R package for the reproducible identification of synteny blocks and chromosomal rearrangments via comparison of two genetic maps. syntR implements an error-aware clustering algorithm specifically designed for the highly linear structure of comparative genetic map data. syntR can be used to identify synteny blocks using any type of ordered genetic markers.


You can install syntR from Github with:



Find synteny blocks shared between Helianthus petiolaris and Helianthus annus (provided as example data):

See Also

GRIMM - A tool for analyzing rearrangements in pairs of genomes, including unichromosomal and multichromosomal genomes, and signed and unsigned data.

Flagel et al. 2018 - An example of a more formal model-based approach to a similar problem.