RAxML and FastTree: Comparing Two Methods for Large-Scale Maximum Likelihood Phylogeny Estimation
The 1000-taxon model conditions are arranged along each x-axis from left to right in order of increasing difficulty. Standard error bars are shown. for each average value. Statistical tests were performed using one-tailed pairwise t-tests with Benjamini-Hochberg  correction for multiple tests. Model conditions marked with an asterisk (“*”) indicate that RAxML's missing branch rate was a statistically significant improvement over FastTree's missing branch rate. Model conditions marked with a dollar sign (“$”) indicate that FastTree's missing branch rate was a statistically significant improvement over RAxML's missing branch rate. and for each statistical test.