Phylogenetic analysis of 2014 Ebolavirus outbreak in Guinea.
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README.md
ebolavirus_cds.nex
ebolavirus_cds.nex.con.tre
ebolavirus_intergenic.nex
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ebolavirus_raw.nex
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README.md

##Phylogenetic analysis of 2014 Ebolavirus outbreak in Guinea.

This repository contains three alignments (nexus format) and three trees (FigTree format) that were used by @rambaut and I in the PLOS Currents Outbreaks paper:

  • ebolavirus_cds.nex - contains 7 concatenated protein coding sequences from 49 ebolavirus genomes. This alignment was analyzed using MrBayes. The resulting tree ebolavirus_cds.nex.con.tre was used to make Figures 2 and 3.
  • ebolavirus_intergenic.nex - contains concatenated non-coding sequences from 49 ebolavirus genomes. This alignment was also analyzed in MrBayes. The resulting tree ebolavirus_intergenic.nex.con.tre was used to make Figure 4.
  • ebolavirus_raw.nex - contains 49 aligned complete ebolavirus genomes. This alignment was analyzed in PhyML and the resulting tree, ebolavirus_raw.phyml.tree was used to make Figure 1.

============== ###Acknowledgments

We would like to thank Stephan Günther at the Bernhard Nocht Institute for Tropical Medicine, Hamburg and his co-authors for sending the 2014 Guinea outbreak sequences ahead of their publication on Genbank.