Groups

This screen provides an easy-to-use interface to defining sub-populations of the uploaded sequences. For this purpose, the user can use three kinds of filters:

• On metadata attributes, choosing the ‘Attribute’ first, then a set of accepted ‘Values’ for that attribute.
• On amino acid variants
  • from a list of all possible available changes that can occur in the virus species proteins
  • from a list of interesting variants, with effects documented in literature (e.g., about virulence and disease severity)
• On nucleotide variants from a list of all possible available changes that can occur in the virus species full nucleotide chain

Here we show the 'Groups' screen of VirusLab, for the definition of sub-population of interest of the user.

Here we show the menu for filtering the global population using its describing metadata.

Here we show the menu for selecting amino acid variants.

Once the user is satisfied with the choices, she can proceed with assigning a name (and description) to the group and creating it. This is memorized in the table below; this provides one row for each user defined group, in addition to a default group ‘ALL’ that includes all the sequences uploaded by the user. The number of sequences and the chosen filters can be visualized. Also, a user may download the full group content in form of a multi-FASTA file, a VCF of nucleotide variants, and a CSV metadata file, useful for following analysis on other platforms. Groups can be dropped and recreated when necessary.