BIGSdb user guide

There are two types of BIGSdb database: one is for sequence/allele definitions and the other is for isolate data.

Sequence definition databases

Sequence definition databases contain unique sequences for any number of loci defined by allele numbers. They can also hold scheme profile definitions, i.e. unique combinations of alleles at specific loci defined by a primary key field.

• Querying sequences to determine allele identity
• Browsing scheme profiles
• Querying scheme profiles
• Investigating allele differences

Isolate databases

Isolate databases hold isolate provenance information linked to sequence data. These sequences can be tagged with locus details and allele designations can be defined for each isolate.

• Searching
• User-configurable options
• Quering by allelic profile
• Retrieving isolates from a list
• Retrieving by linked publication
• Data analysis
  • Field breakdown
  • Two field breakdown
  • Scheme and allele breakdown
  • Genome comparison
• Exporting data
  • Isolate records
  • Concatenated sequences (FASTA format)
  • Sequences in extended multi-FASTA (XMFA) format
  • Sequence bin for a specific isolate record (FASTA format)