L. S. Jermiin

A new phylogenetic protocol: Dealing with model misspecification and confirmation bias in molecular phylogenetics

The paper introduces a new phylogenetic protocol to address model misspecification and confirmation bias, improving the accuracy of phylogenetic estimates through better assessment of assumptions and goodness-of-fit tests.

Detecting and visualising the impact of heterogeneous evolutionary processes on phylogenetic estimates

The paper presents methods to detect and visualize the impact of heterogeneous evolutionary processes on phylogenetic estimates.

Measuring historical and compositional signals in phylogenetic data

This paper introduces two metrics to quantify historical and compositional signals in phylogenetic data, enabling better selection of phylogenetic data before analysis.

Genome-wide analysis of MIKC-type MADS-box genes in wheat: pervasive duplications may have facilitated adaptation to different environmental conditions

The paper analyzes MIKC-type MADS-box genes in wheat, finding their expansion and functional diversity may aid adaptation to environmental conditions.

GHOST: Recovering Historical Signal from Heterotachously-evolved Sequence Alignments

The paper introduces the GHOST model to improve phylogenetic inference from heterotachously-evolved sequences, showing it accurately recovers tree topologies and provides new insights into historical signals in empirical data.