compare taxonRank info with info from nameparser function

trias-project / daisie-checklist

🇪🇺 DAISIE - Inventory of alien species in Europe

https://trias-project.github.io/daisie-checklist/

MIT License

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compare taxonRank info with info from nameparser function #11

Closed LienReyserhove closed 5 years ago

LienReyserhove commented 5 years ago

Information about the taxon rank can be provided in two ways:

By using the information in subtaxon_rank in the taxon core. This relates to the original information in DAISIE. This information should thus only apply for subtaxa
By using the information in rankmarker, provided by the GBIF nameparser

It would be interesting to see the differences between the returns of the GBIF nameparser and the content of the subtaxon_rank field

LienReyserhove commented 5 years ago

This is the result of the comparison: (more interpretation, see next comment)

nameparser_rankmarker	taxon_subtaxon_rank	records
sp.		10774
infrasp.	subsp.	518
sp.	hyb.	329
infrasp.	var.	141
infrasp.		136
NA	hyb.	54
NA		30
morph		23
sp.	var.	18
NA	agg.	14
morph	subsp.	11
cv.	hyb.	10
sp.	agg.	6
pv.		5
sp.		5
sp.	subsp.	5
cv.		4
infrasp.	f. sp.	4
var.	var.	4
infrasp.	x	3
strain	subsp.	3
var.	subsp.	3
infrasp.	f.	2
infrasubsp.		2
var.		2
cv.	subsp.	1
cv.	var.	1
f.	var.	1
infrasp.	agg.	1
infrasp.	Crous	1
infrasp.	subspecies	1
infrasp.	var	1
infrasubsp.	hyb.	1
morph	var.	1
sp.	Cytosporina sp.	1
sp.	f. sp.	1
sp.	sp.	1
subf.	var.	1
subsp.		1
subvar.	subsp.	1
NA	subsp.	1

LienReyserhove commented 5 years ago

I noticed the following:

the large bulk of taxa (10774 out 12122): nameparser_rankmarker = species , while taxon_subtaxon_rank = empty (which is quite logic).
For about 500 taxa: nameparser_rankmarker = infraspecies, while taxon_subtaxon_rank = subspecies
For 329 taxa: nameparser_rankmarker = species, while taxon_subtaxon_rank = hybrid We do not use hybrid as a taxonRank anymore, so I suspect the information provided by the nameparser is more correct in this case.

SO: for about 11000 species, the information provided by the rankmarker should be considered as OK (and even better). So just use the taxon rank information provided by GBIF ?

@peterdesmet , @DavidRoy, @qgroom ?

DavidRoy commented 5 years ago

Yes, I think so. With a project more than 10 years old, we cannot go back and investigate the inevitable errors in the DAISIE database. I think we (you!) do the best job of mapping that can be done in the time available. Thanks for all your efforts!

LienReyserhove commented 5 years ago

Ok, thanks for the response! Closing the issue.

peterdesmet commented 5 years ago

GBIF rankmarker will indeed provide cleaner information than taxon_subtaxon_rank, even if there might be some loss of information.