Rapidly detect and identify microbial species information from the genomic data of clinical or environmental samples
Pathogen
v1.0.0
Average Nucleotide Identity (ANI)
Using pyani to compute the genomic-level similarity of genomes
Tool
v1.0.0
Format Conversion
在FASTA，GFF，Genbank和FAA间格式转换。
病原分型工具
Serotyping
v2.0.1
Multilocus sequence typing (MLST)
Bacterial typing method based on nucleic acid sequencing determines the sequence type of the strain through housekeeping gene analysis
Serotyping
v1.0.0
Escherichia Coli Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Salmonella Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Shigella Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Vibrio Cholerae Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Klebsiella Pneumoniae Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Streptococcus Pneumoniae Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Vibrio Parahaemolyticus Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Acinetobacter Baumannii Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Yersinia Enterocolitica Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Yersinia Pseudotuberculosis Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Pseudomonas Aeruginosa Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Morganella Morganii Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Plesiomonas Shigelloides Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Proteus Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Providencia Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Molecular classification of Respiratory Syncytial Virus
Molecular classification of Respiratory Syncytial Virus sequences using R package resvidex
Serotyping
v1.0.0
Drug resistance analysis of Mycoplasma Pneumoniae
Analyze the mutation status of common loci A2063G, A2064G, C2617G, and A2067G within the drug-resistance genes of Mycoplasma pneumoniae
Serotyping
v1.0.0
Streptococcus Suis Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Mycoplasma Pneumoniae Lineage Designation
Defining Mycoplasma Pneumoniae lineages based on variation site information from four lineages
Serotyping
v1.0.0
MLVA Typing of Bordetella pertussis
Multiple-locus variable-number tandem repeat analysis (MLVA) of Bordetella pertussis strains
Serotyping
v1.0.0
Vibrio Fluvialis Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
SARS-CoV-2 Lineage Designation
Use Pangolin to designate the dynamic nomenclature of SARS-CoV-2 lineages
Serotyping
v1.0.0
Neisseria Meningitidis Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Escherichia genus strain phylotyping
Using ClermonTyping for Rapid Systematic Phylotyping of Escherichia Genus Strains
Serotyping
v1.0.0
Listeria Monocytogenes Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Pneumococcal Sequence Cluster analysis
Global Pneumococcal Sequence Cluster (GPSC) is an international genomic definition of a pneumococcal lineage defined using the clustering software PopPUNK
Serotyping
v1.0.0
Lineage classification of Mycobacterium tuberculosis
Using Tuberculosis Lineage Genotyping (TbLG) technology, we can rapidly and accurately classify the lineages of Mycobacterium tuberculosis Complex (MTBC) isolates
Serotyping
v1.0.0
Spa typing of Staphylococcus aureus
The spaTyper service predicts the Staphylococcus aureus spa type from genome sequences
Serotyping
v1.0.0
Using Genomics to Predict the FimH Type of E. coli
Using FimTyper to identify the FimH type in fully or partially sequenced isolates of Escherichia coli
Serotyping
v1.0.0
Campylobacter Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Citrobacter Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Cronobacter Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Enterobacter Aerogenes Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Group B Streptococcus/Streptococcus agalactiae Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Haemophilus Influenzae Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
Serotyping
v1.0.0
Legionella Serotype Prediction
Serotype prediction based on their surface antigens, such as O, H, and K antigens.
基因组元件预测与注释工具
Annotation
v1.0.0
Prokaryotic genome annotation
Using Prokka annotation pipeline to annotate the genome and perform file format conversion, including converting fa files to faa, gff, …
Annotation
v1.0.0
Type III Secretion System Prediction
EffectiveT3 software was used to identify and predict type III secretion systems by scoring each amino acid sequence according to …
Annotation
v1.0.0
Type VI Secretion System Prediction
Based on the web-based resource SecReT6, the T6SS gene cluster and various T6SS-related proteins, including T6SS regulators (T6SRs), T6SS accessory …
Annotation
v1.0.0
Virulence Gene Prediction
Based on the characteristics of bacterial sequences, virulence-related genes in the genome are identified
Annotation
v1.0.0
Resistance Gene Identifier
Studying antibiotic resistance, rapid and quantitative analysis of resistance-related genes in the genome
Annotation
v1.0.0
Pseudogene Prediction
Detecting pseudogene candidates from the annotated files of genomes
Annotation
v1.0.0
CAZy Analysis
Performing prediction of carbohydrate-active enzymes and functional annotation using the emapper software
Annotation
v1.0.0
Insertion Sequence (IS) Analysis
The IS (Insertion Sequence) was analyzed and genotyped based on the bacterial genetic information, the similarity among transposases, and the …
Annotation
v1.0.0
Genomic Island Prediction
Using the IslandPath-DIMOB software to predict genomic islands.
Annotation
v1.0.0
Secondary Metabolite Prediction
The antiSMASH database was used to predict gene clusters of secondary metabolites in fungal/bacterial genomes
Annotation
v1.0.0
Transporter Classification Analysis
Unknown transmembrane transporters were classified and annotated using the structural, functional, and taxonomic information from the TCDB (Transporter Classification Database)
Annotation
v1.0.0
Prophage Prediction
Combining sequence similarity matching and machine learning classification models of genetic characteristics, predict active prophages from whole-genome sequences
Annotation
v1.0.0
Protein Annotation
Based on the Swiss-Prot database, high-quality annotation of protein information and functions for genomes
Annotation
v1.0.0
Pathogen-Host Interaction Analysis
Based on the Pathogen-Host Interactions Database (PHI-base), pathogenic genes, virulence genes, effector protein genes, and other relevant genes in pathogens …
Annotation
v1.0.0
Non-coding RNA Annotation
Using the cmscan program in conjunction with Non-coding RNA family models from the Rfam database, search for and annotate potential …
Annotation
v1.0.0
Salmonella Pathogenicity Island (SPI) finder
A tool for identifying and locating Pathogenicity Islands in Salmonella
