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.
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Number of core-genome SNPs and difference between two islalates in a clade #70
Hello, Thanks! Parsnp is a great tool! I am really eager to know the number of core-genome SNPs used for generating phylogeny and the number of SNP difference between two isolates in a clad just like: number of SNP difference between RM-96-CS and RM-96-MS.
Hello, Thanks! Parsnp is a great tool! I am really eager to know the number of core-genome SNPs used for generating phylogeny and the number of SNP difference between two isolates in a clad just like: number of SNP difference between RM-96-CS and RM-96-MS.