Examples of input files

To download, right-click on the file names below and select “Save Link as…”. All files can be also accessed from here.

RaxMl input

• alignment.fas, aligned sequences in FASTA format;
  
• partitions.txt, alignment coordinates of different parts of the gene (will be used as RaxMl input).
  

MrBayes input

• alignment_mrbayes.nex, aligned sequences in NEXUS format with additional MrBayes block containing commands for the analysis.
  

Examples of resulting trees

• tree_raxml.nwk, phylogenetic tree in Newick format constructed by RaxMl;
  
• tree_mrbayes.nex, phylogenetic tree in NEXUS format constructed by MrBayes;
  
• tree_mrbayes_figtree.nex, phylogenetic tree in NEXUS format constructed by MrBayes, in a FigTree-friendly format - only for demonstrational purposes.
  

Input files used for visualization

• labels_simple.csv, main table mapping tree labels to the publication-ready labels;
  
• labels_extended.csv, alternative table mapping tree labels to the data needed to construct publication-ready labels.
  

Home