2. Features

TPPS has many features that make data collection easier for administrators. Here are a few notable ones:

2.1. Data Types and Standards

  • Support for genotype, phenotype, and environmental data and metadata
  • Support for population, association, and landscape genetics studies
  • Support for ontology standards, including the Minimum Information About a Plant Phenotyping Experiment (MIAPPE)
  • Support for standard genotyping file formats, such as .VCF
  • Automatically submits data according to the Tripal CHADO database schema

2.2. Data Accessibility

  • Data is standardized and stored in the local database so that other tools, for example, CartograTree, can easily collect and analyze it
  • Restricted access to approved users of the site
  • Accepted studies are associated and stored in the database with longterm accessions that can be used in publication
  • The studies can be queried or downloaded (flatfiles) through the Tripal interface
  • Display both complete and incomplete submissions on ‘TPPS Submissions’ user profile tab

2.3. User Friendliness

  • Map thumbnails for quick visual validation
  • Auto-complete appropriate fields based on information from the user profile
  • Load data from NCBI based on a provided BioProject accession number
  • Automatically parse file contents for submission to the CHADO schema
  • Save user progress on incomplete submissions
  • Form flexibility to ensure only the minimum necessary information is being required, but users may provide additional information if they choose

2.4. Administrative Features

  • Administrator panel to manually approve completed submissions
  • Configuration page to specify file upload locations, TPPS Admin email, etc.