40 docs tagged with "typing"

Determine the agr locus type and operon variants in Staphylococcus aureus.

In silico typing and characterization of *Bacillus cereus* group genomes.

In silico taxonomic classification of Bacillus cereus group genomes.

Determine the phylogroup of Escherichia coli isolates.

Predict phylogroups of Escherichia coli from genome assemblies.

Predict *Escherichia coli* serotype (O and H antigens).

*emm*-typing of *Streptococcus pyogenes* (Group A Strep) assemblies.

Run all available MLST schemes for a species against an assembly

Run all available MLST schemes for a species against an assembly

Predict *Haemophilus influenzae* capsule serotype.

Predict *Haemophilus parasuis* serotype.

Genotyping and screening of *Klebsiella* genome assemblies.

In silico Sequence Based Typing (SBT) of *Legionella pneumophila*.

Predict *Listeria monocytogenes* serogroup.

MinER assisted species-specific bactopia tool seLectIoN.

Automatic Multi-Locus Sequence Typing (MLST) of genome assemblies.

Reconstruct and type plasmids from bacterial genome assemblies.

Serotyping and Multi-Antigen Sequence Typing (MAST) of *Neisseria gonorrhoeae*.

Perform multi-antigen sequence typing of Neisseria gonorrhoeae from genome assemblies.

Predict O-antigen serogroup of Pseudomonas aeruginosa isolates.

Predict serogroups of Pseudomonas aeruginosa from assemblies.

Predict Penicillin Binding Protein (PBP) type of *Streptococcus pneumoniae* assemblies.

Identify plasmid replicon types in bacterial sequences and assemblies.

Identify plasmid replicons in bacterial genome assemblies.

Perform capsular typing of Streptococcus pneumoniae from NGS data.

Identify SCCmec elements in Staphylococcus aureus genomes.

Identify SCCmec elements in Staphylococcus aureus genomes.

Predict serotypes of Shigella from assemblies.

Shigella serotype from Illumina or Oxford Nanopore reads.

Predict serotypes of Shigella from reads or assemblies.

Predict serotypes of Shigella and EIEC from assemblies.

Serovar prediction of Salmonella assemblies.

Salmonella In Silico Typing Resource command-line tool.

Finding spa types in Staphylococcus aureus.

Serotype prediction of Streptococcus suis assemblies.

Predict serotypes of Streptococcus suis from genome assemblies.

Primer based SCCmec typing of S. aureus genomes.

Identify SCCmec elements in Staphylococcus aureus genomes using Staphopia method.

Serotype of Shigatoxin producing E. coli using reads/assemblies.

Detect resistance and lineages of Mycobacterium tuberculosis genomes.