Isolates
The Isolate (
) is the
fundamental data object in the Multilocus Sequence Typing Module. An isolate in this
context constitutes a collection of sequencing results - one for
each locus. A sequencing result is represented as a contig which has
been assembled from one or more sequencing reads (usually a forward
and a reverse read) and a reference sequence defined by the scheme.
The creation of an isolate is always based on a given scheme and
consists of the assembly of sequencing data for each loci,
assignment of allele type for each loci given the alleles in the
scheme, and final assignment of sequence type given the sequence
types in the scheme. In the Multilocus Sequence Typing Module] all these steps are
performed automatically and rapidly.
Subsections