A web application that allows user to upload a spreadsheet of sequence data into a database. With a click of a button, the user can then pull corresponding specimen metadata from GBIF via the occurrence API, updating each record in the database with up to date occurrence metadata. Finally, FASTA and Source Modifier files can be generated and downloaded for selected records, ready for upload to GenBank.
We might be able to extract functionality to perform this linking in the extraction or as a Pipeline process. It looks like it uses the provided collection code and catalog number for the lookup. We can probably do the same thing for the ALA API.
https://github.com/ricklevy21/fasta-gen https://specimods.botanicgardens.org/
We might be able to extract functionality to perform this linking in the extraction or as a Pipeline process. It looks like it uses the provided collection code and catalog number for the lookup. We can probably do the same thing for the ALA API.