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MIxS should have examples for all terms. They should comply with the constraints/specification for that term, and should use a value that is common for that attribute in the INSDC Biosamples

Open turbomam opened this issue 3 years ago • 5 comments

  • [x] #910
  • [ ] - slope_aspect "nw" is implied to be an acceptable response in the Definition (Value syntax = '{float} {unit}')

turbomam avatar Oct 12 '22 22:10 turbomam

the env_local_scale needs the full ID in its example

mslarae13 avatar Apr 16 '25 14:04 mslarae13

slope_aspect says a numerical value & unit is required. Is this true? Or should this be either? If it was historically either, should it be one or the other? Can @turbomam check INSDC and see how people are using this slot?

mslarae13 avatar Apr 16 '25 14:04 mslarae13

slope aspect = mixs:0000647 definition includes both "(direction or degrees); e.g., nw or 315 degrees. ". We should check previous usage and adjust the definition to only recomend one of those types, i.e. either a text or degrees not both.

only1chunts avatar Apr 16 '25 14:04 only1chunts

if text is allowed there should be an enum, e.g. based on 8 or 16 point compass rose https://en.wikipedia.org/wiki/Compass_rose?utm_source=chatgpt.com#Modern_depictions

cmungall avatar Apr 16 '25 14:04 cmungall

I have attached the counts of unique NCBI/INSDC Biosample slope_aspect values as of 2025-04-25

As usual, the most common values are missing data indicators, most of which do not comply with the INSDC missing data standards.

slope_aspect style biosample count
missing data indicators 8587
alphabetical directions (N, S, NE, etc) 1194
numerical degrees (45, 90°, etc) 796
other 123
Total 10700

turbomam avatar Jul 01 '25 13:07 turbomam