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.
Other
123
stars
25
forks
source link
multi-MUM search and libMUSCLE aligner not working #136
I ran this command: parsnp -r g1.fna -d ./data -c
g1 is the FASTA file of the reference genome and data is the folder containing the other genomes. I get these errors:
I blurred certain parts for privacy
bkille
commented
7 months ago
I ran this command: parsnp -r g1.fna -d ./data -c g1 is the FASTA file of the reference genome and data is the folder containing the other genomes. I get these errors:
I blurred certain parts for privacy