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GenomicsStandardsConsortium / mixs

Minimum Information about any (X) Sequence” (MIxS) specification
https://w3id.org/mixs
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Move plant checklist into MIxS as a checklist #247

Open ramonawalls opened 3 years ago

ramonawalls commented 3 years ago

Right now is floating around on its own. Needs to be incorporated into the main MIxS file as a checklist and have IDs assigned.

See issue #202.

only1chunts commented 3 years ago

aim for v7

ramonawalls commented 3 years ago

See https://gensc.org/the-plant-specimen-contextual-data-consensus/

only1chunts commented 3 years ago

I know its not time to start discussing v7 yet! but is this plant contextual data consensus a "checklist" or a "package"? It kind of seems like a package that is specific to only MIGS-Eukaryotic checklist, i.e the plant-associated package would be used for MIMS, MIMARKS checklists, but plants package for MIGS. If thats the case it is somewhat unique in out current setup, however, I do think its more appropriate to have a plant specific checklist for Genomes and a plant-associated checklist for MetaGenomes! and we might want to consider something similar for other groups, eg. animals, fungi, birds, mammals, etc....

mslarae13 commented 1 year ago

I'm trying to sort out if rhizosphere soil is plant-associated or soil ... I always assumed soil with some plant -associated extension slots because there's nothing in the plant-associated extension to indicate if the soil or the root was sequenced aside from a slot "plant_structure" but that's optional. With that... what is this plant vs plant_associated???

cmungall commented 1 year ago

The URL https://gensc.org/the-plant-specimen-contextual-data-consensus/ doesn't resolve, and it doesn't appear to be in archive.org

This seems to be the consensus reference https://academic.oup.com/gigascience/article/5/1/giw002/2756883?login=false

There is an attachment which is a word doc, I converted it here: https://chat.openai.com/share/c780d6c3-0685-4fd9-8c25-5a1d6bb82b51