Reposted by Pratik Katte
ARGformer is out in Bioinformatics!
doi.org/10.1093/bioi...
Just as PCA reduces dimensionality from genotypes, ARGformer can do this now for ARGs...yielding a representation that comes directly from inferred genealogical topologies & at a haplotype level across each individual genome.
doi.org
ARGformer: learning on ancestral recombination graphs with transformers
AbstractMotivation. Recent advances in inference of the ancestral recombination graph (ARG), which describes how segments of chromosomes trace back through