Source: gubbins Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Section: science Priority: optional Build-Depends: debhelper-compat (= 13), dh-python, fasttree, iqtree, raxml (>= 8.2.12+dfsg-5), python3-setuptools, zlib1g-dev, check, python3, python3-biopython, python3-dendropy, python3-reportlab, python3-nose, pkg-config Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/gubbins Vcs-Git: https://salsa.debian.org/med-team/gubbins.git Homepage: https://sanger-pathogens.github.io/gubbins/ Rules-Requires-Root: no Package: gubbins Architecture: any Depends: ${shlibs:Depends}, ${misc:Depends}, ${python3:Depends}, python3, raxml Recommends: iqtree, fasttree Description: phylogenetic analysis of genome sequences Gubbins supports rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences. . 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.