AMPHORA is an Automated Phylogenomic Inference Pipeline for bacterial sequences. From a given a set of protein sequences, it automatically identifies 31 phylogenetic marker genes. It then generates high-quality multiple sequence alignments for these genes and make tree-based phylotype assignments.
Links
- AMPHORA – OpenWetWare
- martinwu/AMPHORA – GitHub
- Genome Biology | Full text | A simple, fast, and accurate method of phylogenomic analysis
- http://bobcat.genomecenter.ucdavis.edu/AMPHORA/
Examples of using AMPHORA
