11 projects
profile-dists
Profile Dists: Rapid calcualtion of allele profile distances and distance base querying
arborator
Arborator: Simplifying operationalized pathogen surveillance and outbreak detection
genomic-address-service
Genomic Address Service: De novo clustering and cluster address assignment
locidex
Genomic Address Service: De novo clustering and cluster address assignment
staramr
Scans genome contigs against ResFinder, PlasmidFinder, and PointFinder databases
sistr-cmd
Serovar predictions from Salmonella whole-genome sequence assemblies by determination of antigen geneand cgMLST gene alleles using BLAST. Mash MinHash can also be used for serovar prediction.
mikrokondo-tools
None
genomics-data-index
Indexes genomics data (nucleotide variants, kmers, MLST) for fast querying of features.
ectyper
Escherichia coli fast serotyping using both raw reads and assemblies with automatic species identification
card-live-dashboard
A dashboard to display antimicrobial resistance data from CARD:Live
irida-sistr-results
Exports SISTR results available through IRIDA into a single report.
