Features

Sample Management

• Create samples from paired and unpaired FASTQ files
• Track samples from creation to analysis
• Quickly and easily search and filter sample records
• Error correction, trimming, and quality assessment is performed automatically
• View sample quality metrics generated during import in clean, readable graphics. Analysis and graphics based on FastQC, the most commonly used next-gen QC tool

Bioinformatic Analysis

• Detect Known Viruses
• Quickly assess sample libraries for the presence of viruses in Virtool's reference database.
• Based on tools such as Bowtie2 and Pathoscope
• Discover Novel Viruses
• Use our novel analytical pipeline, NuVs, to find previously unknown viruses
• Uses SPAdes and HMMER
• Inspired by vFAM

Reference Management

• Maintain multiple reference sets for different classes of pathogens or pests
• Manage OTUs
• Easily browse and edit the organizational taxonomic units (OTUs) in a reference
• Easily create and edit OTUs without touching a text file
• Track and detect multiple isolates or strains of an OTU
• Enter multiple sequence segments and automatically retrieve data based on Genbank accessions
• Track every change ever made to an OTU
• Easily revert uncommitted changes
• Follow a natural versioning lifecycle by building optimized mapping indexes when valid changes have been made to the reference

Subtractions

• Create Subtractions
• Create subtraction indexes for removing unwanted sequencing data from analyses

Job Management

• Manage and track resource-intensive tasks such as analyses or sample creation
• Find out where indiviual jobs are in their lifecycles

User Management

• Add or remove users and control their access and permissions
• Control Activity Using Groups
• Assign group ownership and rights to samples
• Control reference access and modification rights by user and group
• Restrict activity using group permissions