RevGadgets

RevGadgets visualizes RevBayes outputs in R to generate publication-quality figures that summarize Bayesian phylogenetic analyses.

Key Features:

• Integration with RevBayes: Imports RevBayes analysis outputs into R for downstream processing and visualization.
• Data processing pipelines: Provides functions to import, process, and prepare RevBayes outputs for plotting.
• Paired processing and plotting functions: Uses paired processing and plotting routines that align with standard phylogenetic analysis workflows.
• Publication-quality plotting: Includes plotting functions tailored to produce publication-quality figures of phylogenetic results.
• Comprehensive analysis support: Supports visualization of tree building, divergence-time estimation, diversification-rate estimation, ancestral-state reconstruction, biogeographic range reconstruction, and posterior predictive simulations.

Scientific Applications:

• Evolutionary studies: Visualizes phylogenetic trees, divergence times, ancestral states, diversification rates, and biogeographic reconstructions from RevBayes analyses.
• Epidemiological studies: Enables visualization of phylogenetic outputs relevant to epidemiology, including divergence-time estimates and posterior predictive simulations.
• Model validation and hypothesis testing: Supports visualization of posterior predictive simulations and summary plots to assess model fit and compare hypotheses.

Methodology:

Imports RevBayes outputs into R and applies paired processing and plotting functions to produce figures for tree visualization, divergence-time estimation, diversification-rate estimation, ancestral-state reconstruction, biogeographic range reconstruction, and posterior predictive simulations.