panREPET is described in this preprint available on BioRxiv
panREPET is a pipeline detecting shared Transposable Element (TE) insertions among a pangenome. It takes in charge multiple de novo whole-genome assemblies of the same species. It compares TE copies between each pair of genomes then identifies TE copies shared by a group of individuals.
Code available here : https://forgemia.inra.fr/urgi-anagen/panREPET