A question and answer web form system for exploring the research questions and datasets pertinent to an emerging infectious disease outbreak.
Call SNPs and indels between a reference genome and your sequence data
Call core SNPs agains a reference genome for a set of bacterial isolates, and build a phylogenetic tree based on the core-genome SNP information.
Determine the sequence type of specific transposable elements in bacterial isolates.
Estimate the relative abundance of sequence reads originating from different species in a sample using the IRIDA system
Detect the presence of specific resistance genes in a sample using the IRIDA system
List and download schemes from pubMLST.org and other BIGSDB servers
LexMapr: A Lexicon and Rule-Based Tool for Translating Short Biomedical Specimen Descriptions into Semantic Web Ontology Terms
An ontology that contains various agency category schemes that Lexmapr can use to report matched terms by.
Ontofetch is a command line tool to fetch branches of terms from a given local file or internet based ontology URL. This is output in JSON format, and includes term label, definition, broad, narrow, exact and unspecified) synonyms.
Human RNA virus genotyping
A Galaxy tool that converts an NCBI BLAST XML format search result into 12, 24, 26 or custom column tabular and HTML reports.
A new system for managing OBO PURLs
Protege tutorial resources
💉 📊 Flu Classification Suite
Determine the MLST sequence type for samples using PubMLST schemes in the IRIDA system
An analysis pipeline for the purpose of investigating Carbapenemase-Producing Organisms.
Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology
Python scripts to assign clade designations to influenza amino acid fasta files.