Source: parsnp Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Section: science Priority: optional Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, cython3, libmuscle-dev Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/parsnp Vcs-Git: https://salsa.debian.org/med-team/parsnp.git Homepage: https://harvest.readthedocs.org/en/latest/content/parsnp.html Rules-Requires-Root: no Package: parsnp Architecture: any Depends: ${shlibs:Depends}, ${misc:Depends}, ${python3:Depends}, python3-biopython, python3-numpy, fasttree, harvest-tools, mummer, phipack, python3, raxml Recommends: python3-dendropy Description: rapid core genome multi-alignment Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can be both draft assemblies and finished genomes, and output includes variant (SNP) calls, core genome phylogeny and multi-alignments. Parsnp leverages contextual information provided by multi-alignments surrounding SNP sites for filtration/cleaning, in addition to existing tools for recombination detection/filtration and phylogenetic reconstruction.