2023-08-28

This is PMA's DBGI daily open-notebook.

Today is 2023.08.28

Todo today

Have a look at the DBGI discussion forum

- https://github.com/orgs/digital-botanical-gardens-initiative/discussions

Doing

Paused

Done

Quick chat with Donat

talked about the possibility of a DBGI hackaton : from collection to SPARQL query The problem is that we need to lyophilize/MS in between This would need to be splitted in maybe two half a week hackatons.

Fo the first part, Donat proposed that we could collect in the Vinesh vineyards https://www.inaturalist.org/projects/vinesch where they allready sampled a lot.

PIDs : Mention of DiSSCO developping their PID (not mature for now) https://know.dissco.eu/handle/item/318
Hortus botanicus in Neuchatel this Wednesday
think of ways to push DBGI samples to GBIF, eventough they are not "Research grade" obervations on www.inaturalist.org Donat will also investigate into this

https://www.inaturalist.org/posts/29105-making-sure-your-observations-are-shared-to-GBIF

https://www.gbif.org/dataset/50c9509d-22c7-4a22-a47d-8c48425ef4a7#description

Donat mentionned we should be able to publish to GBIF without beeing an organization. This isn't that clear from this page https://www.gbif.org/become-a-publisher Notably :

Note: At present, GBIF and its Participants only publish data from organizations—that is, institutions, networks and societies—rather than individuals. Options for individuals who wish to publish data include:

working through their affiliated organizations to seek endorsement as a publisher

publishing data papers through a journal publisher with GBIF-ready software and/or hosting services

sharing records through one of the many citizen science platforms that publish records to GBIF

We have to dig this

Set a meeting for this Friday with Patrick and Adriano on progress of the BiCICKL TNA

Looking for an iNat data dump

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7924439/ 20 GB in 10 minutes: a case for linking major biodiversity databases using an open socio-technical infrastructure and a pragmatic, cross-institutional collaboration

https://www.wikidata.org/wiki/Wikidata:Dataset_Imports

https://www.globalbioticinteractions.org/

GLOBI taxon graph https://zenodo.org/record/7761832

Peek into https://github.com/bio-guoda