… can be easily followed by nonexperts and phylogenomic novices in order to assess the
technical robustness of phylogenomic studies or improve the experimental design of a project. …

… We aimed to resolve contentious relationships, with a focus on those that have either been
debated in the literature or been considered important in resolving key evolutionary questions…

… the relationship between influence and prevalence of gene tree … solely composed of the most
likely relationships is impossible. To … Using a large phylogenomic data set, we examine rate …

… We demonstrate that when phylogenomic inference methods disagree, EPSY is an
efficient and useful way to increase confidence in contentious relationships. In conditions (both …

… Phylogenomics has revolutionized systematic … contentious and increasing our confidence
in many others 8,9,10,11,12,13,14 . Despite these successes, phylogenomic studies can …

… for resolution of some long-controversial deep relationships among the early diverging …
phylogenetic backbone reconstructed in this study establishes a framework for future studies …

… of independent steps ranging from gene annotation to species tree … phylogenomic methods
compared to what could be expected from an ideal method. We present five case studies to …

… of deeper nodes, including relationships among families and orders. To clarify these
relationships, we provide a phylogenomic perspective on amphibian relationships by developing a …

… contentious relationships in the AT, the edge-based analysis only supports one (Table 1)
compared to the alternative hypotheses examined (ie, the GT, the plastome trees, and the gene …

… With our extended sampling of families, we can further compare our results to more densely
sampled studies of Trochoidea that used a handful of nuclear and mitochondrial genes (…