Comments (1)
alouis72
commented on June 3, 2024
Hello Diego,
I cannot see any problem in using AGORA on genomes of closely related living species .
Be aware however that AGORA only reconstructs the order of the ancestral genes and not the ancestral sequences. It is therefore only useful if there are karyotipic differences between your genomes (breakpoints, translation,...). The quality of the reconstruction is also dependent on the number of genomes, the quality of the genomes assembly and annotation, as well as on the quality of the gene trees or families of homologs you will give to the pipeline.
Alex
from agora.
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