Open peterjc opened 3 years ago
Using ERC000020 GSC MIxS plant associated would have the same mandatory fields.
Sadly from skimming ENA entries using ERC000025, the three environment fields are something of a mixed bag. The good news is we can probably just put something generic there a more precise term can't be found.
277 added the
thapbi_pict ena-submit
command for use with the TSV template for mapping your FASTQ files to your samples. Prior to that you must define the samples, and ideally follow one of the metadata sample checklists: https://www.ebi.ac.uk/ena/browser/checklistsRight now for our samples which are a mix of water, soil and plant derived, I am leaning to ERC000025 GSC MIxS miscellaneous natural or artificial environment: https://www.ebi.ac.uk/ena/browser/view/ERC000025
This has 11 mandatory fields, first these non-sample terms:
project name
, would be "Phyto-Threats" etc.sequencing method
, would be Illuminainvestigation type
, would bemimarks-survey
for our field samples (and blanks?) ormimarks-specimen
for our single isolate samples.And then under collection event information:
collection date
, ISO8601 stylegeographic location (country and/or sea)
, e.g. "United Kingdom"geographic location (latitude)
, decimal degreesgeographic location (longitude)
, decimal degreesmiscellaneous environmental package
, would be "miscellaneous natural or artificial environment"environment (biome)
, tricky...environment (feature)
, tricky... especially for our root/plant samplesenvironment (material)
, this should be fine based on our existing metadata: