[tdwg-content] terms for sample data in DwC

Fri Dec 12 23:49:28 CET 2014

We have been trying to remove examples from definitions and putting them
into the comments. I recommend the same in this case.

On Fri, Dec 12, 2014 at 10:28 AM, Éamonn Ó Tuama [GBIF] <eotuama at gbif.org>
wrote:

> Thanks for feedback, Gail.
>
> We propose to change the definition of “quantity” from this (which you
> find too vague) -
>
>
>
> quantity: the quantity, per sampling event, given as a number or
> enumeration value for the quantityType.
>
>
>
> to this –
>
> quantity: a number or enumeration value for the quantityType (e.g.,
> individuals, %biomass, %biovolume, BraunBlanquetScale) per sampling event.
>
>
>
> I trust by including examples of quantityType in the definition, the
> examples given (“12.5”, “r”) have the context you felt was missing.
>
>
>
> Best regards,
>
> Éamonn
>
>
>
> *From:* Kampmeier, Gail E [mailto:gkamp at illinois.edu]
> *Sent:* 13 November 2014 16:55
> *To:* Éamonn Ó Tuama [GBIF]; tdwg-content at lists.tdwg.org
> *Subject:* RE: [tdwg-content] terms for sample data in DwC
>
>
>
> The term "quantity" seems to beg a qualifier (i.e., "sampleQuantity"), and
> perhaps this is because the definition of "quantity" seems
> insufficient/vague. I was wondering why the definition in an earlier email
> (19 Aug. 2014) from Eammon, "quantity: the number or enumeration value of
> the quantityType (e.g., individuals, biomass, biovolume,
> BraunBlanquetScale) per samplingUnit or a percentage measure recorded for
> the sample." was not used The examples given ("12.5, r") are not very
> helpful, as a decimal quantity is not immediately what comes to mind
> without context (I know, that's in quantityType). What is used for
> quantityType is actually more relatable, or enumeration of what is in the
> sample data primer.
>
> Sorry if I have missed other emails discussing this, but I am very glad to
> see the doors opening to the huge volume of experimental data from
> agriculture as well as other fields.
>
>
>
> Cheers!
>
> Gail
>
>
>
> Gail E. Kampmeier
>
> Illinois Natural History Survey
>
> Prairie Research Institute
>
> University of Illinois
>
> 1816 So. Oak St.
>
> Champaign, IL 61820
>
> www.inhs.illinois.edu/~gkamp
> ------------------------------
>
> *From:* tdwg-content-bounces at lists.tdwg.org [
> tdwg-content-bounces at lists.tdwg.org] on behalf of Éamonn Ó Tuama [GBIF] [
> eotuama at gbif.org]
> *Sent:* Friday, November 07, 2014 08:21
> *To:* tdwg-content at lists.tdwg.org
> *Subject:* [tdwg-content] terms for sample data in DwC
>
> In compliance with the directions for requesting changes to the Darwin
> Core (DwC) vocabulary, we hereby submit to the TDWG Content list a proposal
> for five new terms to express information on sample-based data.
>
>
>
> Sample-based data is a type of data available from thousands of
> environmental, ecological, and natural resource investigations. These can
> be one-off studies or monitoring programmes. Such data are usually
> quantitative, calibrated, and follow certain protocols so that changes and
> trends of populations can be detected. This is in contrast to opportunistic
> observation and collection data which today form a significant proportion
> of openly accessible biodiversity data.  Sample-based data are often not
> shared because the underlying protocols have been hard to encode in a
> standardised way. For further background information and examples, please
> consult the sample data primer document [1].
>
>
>
> We cannot emphasise enough that our intention here is not to establish how
> data should be captured or modelled but rather demonstrate one way data can
> be exposed to maximize discoverability and reuse. In particular, GBIF, in
> association with EU BON [2] project partners, is exploring how the IPT and
> Darwin Core Archives can enable the flow of sample based data in support of
> GEO BON Essential Biodiversity Variables (EBVs) [3].
>
>
>
> While DwC already provides many terms that are relevant for describing
> sample-based data, based on several inputs (GBIF organised workshop on
> sample data, May 2013 ; previous discussions on the TDWG mailing list;
> discussions on the EU BON mailing list), we have identified a need for five
> new terms. These are:
>
>
>
> *sampleSize*
>
> https://github.com/tdwg/dwc/issues/10
>
> #Justification
>
> Required for sharing organism abundance data from controlled sampling and
> monitoring surveys (i.e., sampling events). For an introduction to the
> sampling proposal please see http://links.gbif.org/ipt-sample-data-primer.
>
> #Definition
>
> A numeric value for the time duration, length, area or volume involved in
> the sampling event.
>
> #Comment
>
> The terms sampleSize and sampleSizeUnit are required to be used as a pair.
> The value of sampleSize is a number. Example: “5” for the value part of 5m.
>
> #Term group
>
> Event
>
>
>
> *sampleSizeUnit*
>
> https://github.com/tdwg/dwc/issues/11
>
> #Justification
>
> Required for sharing organism abundance data from controlled sampling and
> monitoring surveys (i.e., sampling events). For an introduction to the
> sampling proposal please see http://links.gbif.org/ipt-sample-data-primer.
>
> #Definition
>
> The unit of measurement used in the sampling event.
>
> #Comment
>
> The terms sampleSize and sampleSizeUnit are required to be used as a pair,
> e.g., “5 metre”. Example values of sampleSizeUnit include “minute”, “hour”,
> “day, “metre”, “square metre”, “cubic metre”. Recommended best practice is
> to use a controlled vocabulary such as the Ontology of Units of Measure
> http://www.wurvoc.org/vocabularies/om-1.8/ of SI units, derived units or
> other non-SI units accepted for use within the SI (e.g. minute, hour, day,
> litre). Example: “metre” for the unit part of 5m.
>
> #Term group
>
> Event
>
>
>
> *quantity*
>
> https://github.com/tdwg/dwc/issues/12
>
> #Justification
>
> Required for sharing organism abundance data from controlled sampling and
> monitoring surveys (i.e. sampling events). For an introduction to the
> sampling proposal please see http://links.gbif.org/ipt-sample-data-primer.
>
> #Definition
>
> The quantity, per sampling event, given as a number or enumeration value
> for the quantityType.
>
> #Comment
>
> The terms quantity and quantityType are required to be used as a pair. The
> value of quantity is a number or enumeration. Examples: “12.5”, “r”
>
> #Term group
>
> Occurrence
>
>
>
> *quantityType*
>
> https://github.com/tdwg/dwc/issues/13
>
> #Justification
>
> Required for sharing organism abundance data from controlled sampling and
> monitoring surveys (i.e., sampling events). For an introduction to the
> sampling proposal please see http://links.gbif.org/ipt-sample-data-primer.
>
> #Definition
>
> The entity to which the number or enumeration reported in quantity refers.
>
> #Comment
>
> The terms quantity and quantityType are required to be used as a pair,
> e.g., “14 individuals”. The value of quantityType (i.e., the entity being
> measured) is expected to be drawn from a small controlled vocabulary.
> Examples: “Individuals”, “% Biomass”, “% Biovolume”, “% species”, “%
> coverage”, “BraunBlanquetScale”, “DominScale”.
>
> #Term group
>
> Occurrence
>
>
>
> *parentEventID*
>
> https://github.com/tdwg/dwc/issues/9
>
> #Justification
>
> Allows arbitrary linking of sub sampling events, e.g., for nested sampling
> plots. This was demanded by several people during the discussion of the
> TDWG sample based data session. For an introduction to the sampling
> proposal please see http://links.gbif.org/ipt-sample-data-primer.
>
> #Definition
>
> An event identifier for the super event which is composed of one or more
> sub-sampling events.
>
> #Comment
>
> The value must refer to an existing eventID. If the identifier is local it
> must exist within the given dataset. Example: “A1” identifying the main
> Whittaker Plot in nested samples, each with their own eventID (e.g.,
> “A1:1”, “A1:2”).
>
> #Term group
>
> Event
>
>
>
> None of the existing DwC terms is sufficient for any of the proposed terms
> although two are somewhat related: sampleEffort ("The amount of effort
> expended during an Event") and individualCount ("The number of individuals
> represented present at the time of the Occurrence"). Neither are adequate –
> sampleEffort just provides a free text statement so is hard to parse in
> comparison to sampleSize and sampleSizeUnit and individualCount refers
> exclusively to individuals and not percentages or entities like biomass,
> biovolume, etc.
>
>
>
> [1] http://links.gbif.org/ipt-sample-data-primer
>
> [2] http://eubon.eu
>
> *[3] http://www.earthobservations.org/documents/cop/bi_geobon/ebvs/201301_ebv_paper_pereira_et_al.pdf
> <http://www.earthobservations.org/documents/cop/bi_geobon/ebvs/201301_ebv_paper_pereira_et_al.pdf>*
>
>
>
> ____________________________________________________
>
> Éamonn Ó Tuama, Markus Döring, GBIF Secretariat
>
>
>
> _______________________________________________
> tdwg-content mailing list
> tdwg-content at lists.tdwg.org
> http://lists.tdwg.org/mailman/listinfo/tdwg-content
>
>
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