URL: https://harvest.readthedocs.io/en/latest/content/parsnp.html
Proper Citation: Parsnp (RRID:SCR_024153)
Description: Software to align the core genome of hundreds to thousands of bacterial genomes. 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.
Synonyms: parsnp
Resource Type: software toolkit, software resource, software library
Defining Citation: PMID:25410596
Keywords: align core genome, bacterial genomes,
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