TGD POInT datasets and models

Datasets for analysis of the teleost-specific genome duplication (TGD) using POInT (Polyploidy Orthology Inference Tool; https://github.com/gconant0/POInT). Eight genome order files are included (*POInT_gene_orders.txt) corresponding to the eight genomes studied. An optimized ancestral genome order (TGD_OptOrder.txt), WGD gene loss model (WGD_fix_biasconverg_singlerate_model.txt) and assumed phylogeny (TGD_Topo.tre) are also included. All of these files are POInT inputs. POInT's optimal orthology inferences for each duplicated locus is also provided (Optimal_orthology_inferences.txt).Additionally, I provide the conditional probabilities of all possible state transitions along each branch at every duplicated locus (TGD_WGDbcnbnf_OptOrder_condprobs.xlsx). Finally, I provide a list of all inferred ohnolog pairs in zebrafish (AllDrerio_WGD_duplpairs_wtandem_merged.txt), a list which includes a number of ohnolog pairs omitted from the main dataset because homologs of the pair were lacking in at least one other teleost genome. The corresponding list of single-copy genes is AllDrerio_WGD_singls_WTANDEMS.txt