GBIF BIFA mentoring, Day 5b Data paper, July 2016

Adatapaperisasearchablemetadatadocument,describingapar2culardatasetoragroupofdatasets,publishedintheformofapeer-reviewedar2cleinascholarlyjournal.

Slides modified from Dimitri Brosens, data paper workshop in Trondheim October 2015

Theprimarypurposeofadatapaperistodescribedataandthecircumstancesoftheircollec2on,ratherthantoreporthypothesesandconclusions.


Adatapaperisameanofbringingcreditandrecogni4ontoallthoseinvolvedindatapublica2onandtoalertthescien2ficcommunitytotheexistenceofbiodiversitydatasetsandthevaluetheycanbringtopar2cularresearchprojects;andasamechanismforqualityassessmentandcontrolofdataaccessiblethroughGBIFandothernetworks.


What is a dataset?

Adatasetisunderstoodhereasadigitalcollec2onoflogicallyconnectedfacts(observa4ons,descrip4onsormeasurements).Typicallystructuredintabularformasasetofrecords,witheachrecordcomprisingasetoffields,andrecordedinoneormorecomputerdatafilesthattogethercompriseadatapackage.

PenevL,MietchenD,ChavanV,HagedornG,RemsenD,SmithV,ShoPonD(2011).PensoTDataPublishingPoliciesandGuidelinesforBiodiversityData.PensoTPublishers,hPp://www.pensoT.net/J_FILES/PensoT_Data_

Publishing_Policies_and_Guidelines.pdf


PenevL,MietchenD,ChavanV,HagedornG,RemsenD,SmithV,ShoPonD(2011).PensoTDataPublishingPoliciesandGuidelinesforBiodiversityData.PensoTPublishers,hPp://www.pensoT.net/J_FILES/PensoT_Data_

Publishing_Policies_and_Guidelines.pdf

Thereisadis2nc2onbetween‘sta$cdata’some2mescalled‘deaddatasets’and‘curated’dataor‘living’datasets.


discretecollec2onofdataunderlyingapaper

collec2onofdatarelatedtomonitoringac2vi2es

discretecollec2onofdatarelatedtodistribu4onofspecies

discretecollec2onofdataunderlyingaspecificresearch

discretecollec2onofdatarelatedtoacollec4onofspecimens

A DATASET CAN BE:


adatapackageisthe‘file’containingtheactualdataandmetadataandadescriptorfile

GBIFprefersDarwinCoreArchives(DwC-A)asaformatforpublishingDataDarwinCoreArchive(DwC-A)isaBiodiversityinforma2csdatastandardthatmakesuseoftheDarwinCoretermstoproduceasingle,self-containeddatasetforspeciesoccurrenceorchecklistdata.Essen2allyitisasetoftext(CSV)fileswithasimpledescriptor(meta.xml)toinformothershowyourfilesareorganized.TheformatisdefinedintheDarwinCoreTextGuidelines.ItisthepreferredformatforpublishingdatatotheGBIFnetwork.


Why publish data?

dataproducedusingpublicfundsshouldberegardedasacommongood,andshouldbeopenlypublishedandmadeavailableforinspec2on,interpreta2onandre-usebythirdpar2es.

Opendataincreasestransparencyandtheoverallqualityofscience;

Publisheddatasetscanbere-analyzedandverifiedbyothers;

Publisheddatacanbecitedandre-usedinthefuture,eitheraloneorinassocia2onwithotherdata;

Datacanbeintegratedwithotherdatasetsacrossbothspaceand2me;

Dataintegra2onincreasesrecogni4onandopportuni4esforcollabora2on;


Duplica2onofdata-collec2ngeffortsandassociatedcostswillbereduced;

Publisheddatacanbeindexedandmadediscoverable,browsableandsearchablethroughinternetservices(e.g.Websearchengines)ormorespecificinfrastructures(e.g.,GBIFforbiodiversitydata);

Collec2onmanagerscantraceusageandcita4onsofdigi2zeddatafromtheircollec2ons;

Datacreators,andtheirins2tu2onsandfundingagencies,canbecreditedfortheirworkofdatacrea2onandpublica2onthroughtheconven2onalchannelsofscholarlycita2on;priorityandauthorshipisachievedinthesamewayaswithapublica2onofaresearchpaper;

Opendataincreasesthepoten2alforinterdisciplinaryresearch,andforre-useinnewcontextsnotenvisagedbythedatacreator;


Datasetsandtheirmetadata,andanyrelatedDataPapers,maybeinter-linkedintoResearchObjects,toexpediteandmutuallyextendtheirdissemina2on,tothebenefitoftheauthors,otherscien2stsintheirfields,andsocietyatlarge;

Publisheddatamaybestructuredas‚LinkedData‘,andsocreatesnewknowledge


•  AllrightsreservedàDataunusable

•  OpenDataCommonsPublicDomainDedica2onandLicense(PDDL)–(CC0)

•  Crea2veCommonsAPribu2on-NoDerivs(CCBY-ND)•  Crea2veCommonsAPribu2on-NonCommercial(

CCBY-NC)•  Crea2veCommonsAPribu2on-ShareAlike(CCBY-SA)

orOpenDataCommonsOpenDatabaseLicense(ODbL)

•  Crea2veCommonsAPribu2on(CCBY)orOpenDataCommonsAPribu2onLicense(ODC-By)

hPp://www.canadensys.net/2012/why-we-should-publish-our-data-under-cc0

WHAT DATA-LICENSE SHOULD I USE?


Why publish data papers?

Improvetheusabilityofyourpublisheddata!Receivecreditthroughindexingandcita2onofthepublishedpaper.

Increasethevisibilityandcredibilityofthedataresourcesyoupublish.Trackmoreeffec2velytheusageandcita2onsofthedatayoupublish.Receivefeedbackonyourdataset.Increaseyournetwork.Getmoreoutofyoudata.Improvethequalityofyourdataset.


Metadata,literally“dataaboutdata”areanessen2alcomponentofadatamanagementsystem,describingsuchaspectsasthe“what,where,when,whoandhow”pertainingtoaresource.IntheGBIFcontext,resourcesaredatasets,looselydefinedascollec2onsofrelateddata,thegranularityofwhichisdeterminedbythedatacustodian.Metadatacanoccurinseverallevelsofcompleteness.Ingeneral,metadatashouldallowaprospec2veenduserofdatato:1.iden2fy/discoveritsexistence,2.learnhowtoaccessoracquirethedata,3.understanditsfitness-for-use,and4.learnhowtotransfer(obtainacopyof)thedata.5.learnhowthedatashouldbeused

GBIF(2011).GBIFMetadataProfile,ReferenceGuide,Feb2011,(contributedbyOTuama,E.,Braak,K.,Copenhagen:GlobalBiodiversityInforma2onFacility,19pp.AccessibleathPp://links.gbif.org/gbif_metadata_profile_how-to_en_v1

METADATA


GBIF metadata profile

TheGBIFMetadataProfileisprimarilybasedontheEcologicalMetadataLanguage(EML).TheGBIFprofileu2lizesasubsetofEMLandextendsittoincludeaddi2onalrequirementsthatarenotaccommodatedintheEMLspecifica2on.Thefollowingtablesprovideshortdescrip2onsoftheprofileelements,andwhererelevant,linkstomorecompleteEMLdescrip2ons.

-  hPp://knb.ecoinforma2cs.org/soTware/eml/-  hPps://knb.ecoinforma2cs.org/#external//emlparser/docs/index.html

TheGBIFMetadataProfile(GMP)wasdevelopedinordertostandardizehowresourcesgetdescribedatthedatasetlevelintheGBIFDataPortalThisprofilecanbetransformedtoothercommonmetadataformatssuchastheISO19139metadataprofile.

TheelementsusedinIPTareasubsetofthecompleteGBIFmetadataprofile


DESCRIBING A DATASET

IPT metadata based on GBIF metadata profile


•Dataset(Resource)•Project•PeopleandOrganisa2ons•KeywordSet(GeneralKeywords)•Coverage

oTaxonomicCoverageoGeographicCoverageoTemporalCoverage

•Methods•IntellectualPropertyRights•Addi2onalMetadata+NCD(NaturalCollec2onsDescrip2onsData)

Element Descrip4on2tle Adescrip2onofthe

resourcethatisbeingdocumentedthatislongenoughtodifferen2ateitfromothersimilarresources.

descrip2on Abriefoverviewoftheresourcethatisbeingdocumented.

metadatalanguage ThelanguageinwhichthemetadatadocumentiswriPen.

type Thetypeofresource.

subtype Specimenorobserva2ons

BASIC METADATA


Element Descrip4onresourcecontact Theresourcecontactisthe

personororganisa2onthatshouldbecontactedtogetmoreinforma2onabouttheresource,thatcuratestheresourceortowhomputa2veproblemswiththeresourceoritsdatashouldbeaddressed

resourcecreator Theresourcecreatoristhepersonororganisa2onresponsiblefortheoriginalcrea2onoftheresourcecontent.

metadataprovider Themetadataprovideristhepersonororganisa2onresponsibleforproducingtheresourcemetadata.


Element Descrip4ongeographicDescrip2on shorttextdescrip2onofa

dataset'sgeographicarealdomain.

westBoundingCoordinate fieldcoveringtheWmarginofaboundingbox.

eastBoundingCoordinate fieldcoveringtheEmarginofaboundingbox.

northBoundingCoordinate fieldcoveringtheNmarginofaboundingbox.

southBoundingCoordinate fieldcoveringtheSmarginofaboundingbox.

descrip2on Shortdescrip2onofthegeographicalcoverage

GEOGRAPHIC COVERAGE


TAXONOMIC COVERAGE


Element Descrip4onTaxonomiccoveragedescrip2on

Adescrip2onoftherangeoftaxaaddressedinthedatasetorcollec2on.

AddseveraltaxaAddScien2ficName;CommonName;Rank

Addtaxainmetadatauptolowestsharedrank.

Element Descrip4on

Startdate =beginDateEnddata =endDate

TEMPORALCOVERAGE

hPps://knb.ecoinforma2cs.org/#external//emlparser/docs/eml-2.1.1/./eml-resource.html

Element Descrip4onThesaurus/vocabulary n/aKeywordlist Keywordsseparatedby“,”

Element Descrip4onResourcecontact

ASSOCIATEDPARTIES

KEYWORDS


Element Descrip4on2tle TitleoftheprojectPersonnelfirstnamerolefunding Referencetofunding

partners

StudyareaDescrip2on àgeographiccoverageelaborated

Designdescrip2on Projectabstract&design

PROJECT DATA


Element Descrip4onStudyextent Samplingarea(specific)and

samplingfrequency

Samplingdescrip2onQualitycontrol Valida2onandquality

controlac2onsperformedonthedataset

Stepdescrip2on Proceduresfollowedtoproduceadataobject

SAMPLING METHODS


Element Descrip4onCita2oniden2fier URIordoiResourcecita2on cita2on

COLLECTIONDATA Element Descrip4onCollec2onNamecollec2onIDParentcollec2oniden2fier

Preserva2onmethod

CITATIONS


Element Descrip4onResourcehomepage URLAddnewexternallink

ADDITIONALMETADATA Element Descrip4onHierarchylevel datasetDatepublishedPurpose(Ra2onale)LicenseIPrightsAddi2onalinforma2on

EXTERNAL LINKS


GBIF BIFA mentoring, Day 5b Data paper, July 2016

Data & Analytics

Transcript of GBIF BIFA mentoring, Day 5b Data paper, July 2016