Plugins
Categories - Jump to: Export | Analysis
Export
Export plugins - Jump to: FASTA Export | Profile Export | Sequence Export
FASTA Export
Summary: Export FASTA file of sequences following an allele attribute query
Profile Export
Summary: Export file of allelic profile definitions following a scheme query
Documentation bigsdb.readthedocs.io
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
Analysis
Analysis plugins - Jump to: Sequence Similarity | Sequence Comparison | Locus Explorer
Sequence Similarity
Summary: Find sequences most similar to selected allele
This plugin will return a list of the most similar alleles to a selected allele, along with values for percentage identity, number of mismatches, and number of gaps. Clicking on the link for each returned match will lead to a sequence comparison page, identifying the exact nucleotide/amino acid differences between the query and most similar sequences.
Documentation bigsdb.readthedocs.io
Sequence Comparison
Summary: Display a comparison between two sequences
This shows the nucleotide/amino acid differences between two selected alleles/variants.
Documentation bigsdb.readthedocs.io
Locus Explorer
Summary: Tool for analysing allele sequences stored for particular locus
This plugin generates a schematic showing the polymorphic sites within a locus, calculate the GC content, codon usage, and generate aligned translated sequences for selected alleles.
Documentation bigsdb.readthedocs.io
