Specimods: A web-based tool for producing Genbank submission files for sequenced museum specimens
نویسندگان
چکیده
The expectation of published sequence data on Genbank and other databases is not only a requirement for journal publication, but incredibly valuable continuing research in organismal evolution ecology. process formatting submitting from vouchered specimens burdensome tedious. Improperly formatted submissions lead to lengthy delays frustrations behalf the submitters reviewers. Specimods*1 new tool that utilizes Global Biodiversity Information Facility (GBIF) API produce source modifier files will facilitate batch upload specimen sequences Genbank, using submission platform. Once template CSV populated with catalog numbers, institution codes, SeqID, descriptions, sequences, Specimods pull metadata GBIF two files: FASTA file complete definition line (SeqID, organism name, title) as well containing metadata. Currently, supports Internal Transcribed Spacer (ITS) (1, 2, or both), SSUrRNA_18s, LSUrRNA_28s sequences. application*2 uses an Express server Node.js linked user account stored MySQL relational database. This presentation demonstrate fungal show how dozens can be accomplished matter minutes.
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ژورنال
عنوان ژورنال: Biodiversity Information Science and Standards
سال: 2022
ISSN: ['2535-0897']
DOI: https://doi.org/10.3897/biss.6.94596