Get info about alien species at protect area level about indicators HOT 15 CLOSED

Dataset published on zenodo 🥳
https://zenodo.org/record/3784227

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Thanks @timadriaens and @peterdesmet for your suggestions.

I will produce three files:

• the cube at protected area level
• the taxonomic metadata file
• the protected area metadata file

Cube at protected area level

Taxonomic metadata file

Protected metadata file

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@damianooldoni ok, ping when I should review

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great! Can you add common and scientific names please?

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Scientific names (and maybe common names: harder) should be added via an extra metadata file (like we do for the other cubes), to not inflate the size of the cube

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For analysis purposes, we would also need the native species, so it would be good to add alien or native status (based on the taxon being on the unified or not) and some taxon information (minimally kingdom).

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Let me know when you want to write metadata together for zenodo publication @damianooldoni

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As mentioned in PR @77, I worked on this and I produced a pipeline https://trias-project.github.io/indicators/occurrence_species_protected_areas_level.html in chapter Appendix of indicators webpage.

About the finale table and the two related metadata, the table is too big to be put on GitHub. Indeed, we could publish it on Zenodo. Meanwhile, the output files are tab separated and are downloadable via this Firefox Send link.

@timadriaens : feel free to start a draft about metadata. I will start on Tuesday a Zenodo upload and invite you to join for improvement. @peterdesmet: I learned a lot while publishing with you the cubes, still your review of this new TrIAS Zenodo publication is welcome 😄

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I started an upload to Zenodo. Link: https://zenodo.org/deposit/3784227.
@timadriaens : can you check the metadata? You can login by using my INBO email and the password I will send you privately.

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Thanks @timadriaens to further work on metadata.
Please, be aware that zenodo writing interface is not like GitHub, so if you want to add code you need to do write in Broncode modus. See screenshot here below:

So, please refresh your upload page to see my change.

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After video discussion with @timadriaens , we agreed to modify the protected area data.frame by adding AOO (Area Of Occupancy) and coverage of infraspecific alien taxa. This means that the analysis is not anymore at species level but ensures a better analysis of trends of alien species.

Example here below where the second line will be added:

How to do it? By using not only the Belgian occurrence cube at species level, but also the occurrence cube of alien taxa based on the unified (as output of https://github.com/trias-project/occ-cube-alien and published on Zenodo).

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Infraspecific taxa have been added to protected area analysis.
@timadriaens : e.g. check again the spreading data of alien taxa in Flemish habitat directive areas, https://github.com/trias-project/indicators/blob/master/data/output/protected_areas_analysis/n_prot_areas_per_species_flanders_habitat.csv.
Trachemys scripta elegans is present in 37 areas, Trachemys scripta troostii in 32 areas while Trachemys scripta scripta in 28.

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ok thx

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@peterdesmet: it's time to ping you for a review of the zenodo upload: https://zenodo.org/deposit/3784227#.

You know the credentials.

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Done!

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