BAMMtools: an R package for the analysis of evolutionary dynamics on phylogenetic trees

By D. Rabosky, Michael C. Grundler, Carlos J. R. Anderson, Pascal O. Title, Jeff J Shi, Joseph W. Brown, Huateng Huang, Joanna G Larson. 2014

862 citations recorded by the source corpus.

Subfields: Genetics, Nature and Landscape Conservation, Paleontology

View Paper: https://www.semanticscholar.org/paper/17ca73093f0538d5fce3a3c265849fcc37e9029c

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Genetics

1. R. Kriebel
2. Karl Rohe
3. Mohammad Hassan Khabbazian
4. Hang Sun
5. A. Muellner‐Riehl
6. J. S. Pringle
7. Yong-Ming Yuan
8. Sabine Matuszak

In Nature and Landscape Conservation

1. Hang Sun
2. A. Muellner‐Riehl
3. Cécile Ané
4. Adrien Favre
5. Ingo Michalak
6. Daniel Spalink

In Paleontology

1. Karl Rohe
2. Mohammad Hassan Khabbazian
3. R. Kriebel
4. Hang Sun
5. A. Muellner‐Riehl
6. J. S. Pringle
7. Yong-Ming Yuan
8. Sabine Matuszak

Citations in the corpus

• Fast and accurate detection of evolutionary shifts in Ornstein–Uhlenbeck models (2016, background): “Following Rabosky et al. (2014), we call this set of branches with shifts a ‘shift configuration’.”
• A tale of worldwide success: Behind the scenes of Carex (Cyperaceae) biogeography and diversification (2019, methodology): “The rjMCMC results were investigated using e ff ective sample size for log ‐ likelihood and number of model shifts in the R packages “ coda ” (Plummer et al., 2006) and BAMMtools.”
• Out‐of‐Tibet: the spatio‐temporal evolution of Gentiana (Gentianaceae) (2016, methodology): “A tree with coloured branches indicating diversification rates through time was plotted using BAMMtools 2.1.1 (Rabosky et al., 2014).”