Export plugins

Export plugins - Jump to: Export | Contig export | Sequence Export


Summary: Export dataset generated from query results

The Export plugin creates a download file of any primary metadata, secondary metadata, allele designations, scheme designations, or publications for isolates within a selected dataset or for the whole database. The output file is in Excel format.

Documentation bigsdb.readthedocs.io

Launch 'Export'

Contig export

Summary: Analyse and export contigs selected from query results

This plugin enables the contigs associated with each isolate in a dataset to be downloaded in FASTA format. They can also be downloaded in batch mode as a TAR file. The contigs included in the download can be filtered based on the percentage of the sequence that has been tagged with a locus so that poorly annotated regions can be analysed specifically.

Documentation bigsdb.readthedocs.io

Launch 'Contig export'

Sequence Export

Summary: Export concatenated allele sequences in XMFA and FASTA formats

This plugin creates concatenated XMFA and FASTA files of selected loci for a particular dataset. These sequences can optionally be aligned, using either MAFFT or MUSCLE, facilitating quick analysis of the outputs in third-party phylogenetic analysis packages.

Documentation bigsdb.readthedocs.io

Launch 'Sequence Export'