Difference between revisions of "Gubbins"
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Revision as of 15:17, 22 May 2015
Description
Gubbins (Genealogies Unbiased By recomBinations In Nucleotide Sequences) is an algorithm that iteratively identifies loci containing elevated densities of base substitutions while concurrently constructing a phylogeny based on the putative point mutations outside of these regions. Simulations demonstrate the algorithm generates highly accurate reconstructions under realistic models of short-term bacterial evolution, and can be run in only a few hours on alignments of hundreds of bacterial genome sequences.
Required Modules
Serial
- gubbins
System Variables
- HPC_{{#uppercase:gubbins}}_DIR - installation directory