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.
bkille
commented
2 years ago
Good day,
While working on upgrading the parsnp package for debian sid, our linter caught two typos which you might want to see fixed in the next releases.
Have a nice day, :) Étienne.