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5 write muskrat data prep scripts #22
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# load data | ||
down_musk <- occ_download( | ||
pred("taxonKey", 5219858), | ||
pred_in("datasetKey", c("ddd51fa5-97ce-48ff-9a58-a09d7e76b103", |
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These will need to updated once all the data is published, at the moment we are still missing non-RATO East-Flemish data and West-Flemish data. Best to check with @LienReyserhove or @DimEvil
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Also, these datasets contain both catches and obervations, it would be good to distinguish between those
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any suggestions how ?
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There is a field in the GBIF export called "Sampling Protocol"
For example in the "VMM - Rat control occurrences in Flanders, Belgium" this is coded as either "RAT TRAP" or "casual observation". Although I think a lot of catches are also marked as casual observation, so again this would need to be checked within the data or with Dimi or Lien
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So drop casual observation when dataset == "VMM - Rat control occurrences in Flanders, Belgium" ?
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If it is correct in the dataset, but I'm really not sure about this.
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Looks good!
Options in sampling protocol column
conibear trap;bait trap;fike;material lost/broken conibear trap;bait trap;fike;raft trap |
This looks like way too many casual observations |
all casual observations are from the VMM dataset. This dataset also includes 6078 records with |
I suggest dropping "casual observations" as well as all "lost/broken" material Muskrat captures also contains a large body of sampling protocol "" (n = 95940), MICA east flanders has 528 of these and RATO 841. What should we do with these ? |
There are also 18983 records with NA as individual count. What to do with these ? |
fixes #5
Deze workflow werkt de logica uit om de muskusratten data van gbif binnen te halen en te koppelen met de gemeentes en de provincies.
Na de goedkeuring wordt deze flow iedere maandag getriggered.