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* css for making TOC section headers more visible * css for callout boxes to highlight important notes or warnings * added a download link to download the term checklist
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,203 @@ | ||
| Term , OBIS Required , Term's DarwinCore Class , Event Table , Occurrence Table (Core/Extension) , eMoF Table , DNA Table � | ||
| eventDate,required,event,x,x/-,�,� | ||
| eventID,required,event,x,-/x,x,� | ||
| decimalLatitude,required,location,x,x/-,�,� | ||
| decimalLongitude,required,location,x,x/-,�,� | ||
| occurrenceID,required,occurrence,�,x/x,x,x | ||
| occurrenceStatus,required,occurrence,�,x/x,�,� | ||
| basisOfRecord,required,record,�,x/x,�,� | ||
| scientificName,required,taxon,�,x/x,�,� | ||
| scientificNameID,strongly recommended,taxon,�,x/x,�,� | ||
| DNA_sequence,strongly recommended,dna,�,�,�,x | ||
| env_broad_scale,strongly recommended,dna,�,�,�,x | ||
| env_local scale,recommended,dna,�,�,�,x | ||
| env_medium,strongly recommended,dna,�,�,�,x | ||
| lib_layout,recommended,dna,�,�,�,x | ||
| nucl_acid_amp,recommended,dna,�,�,�,x | ||
| nucl_acid_ext,recommended,dna,�,�,�,x | ||
| otu_class_appr,recommended,dna,�,�,�,x | ||
| otu_db,recommended,dna,�,�,�,x | ||
| otu_seq_comp_appr,recommended,dna,�,�,�,x | ||
| pcr_primer_forward,strongly recommended,dna,�,�,�,x | ||
| pcr_primer_name_forward,strongly recommended,dna,�,�,�,x | ||
| pcr_primer_name_reverse,strongly recommended,dna,�,�,�,x | ||
| pcr_primer_reference,strongly recommended,dna,�,�,�,x | ||
| pcr_primer_reverse,strongly recommended,dna,�,�,�,x | ||
| samp_name,recommended,dna,�,�,�,x | ||
| samp_vol_we_dna_ext,recommended,dna,�,�,�,x | ||
| seq_meth,recommended,dna,�,�,�,x | ||
| sop,recommended,dna,�,�,�,x | ||
| target_gene,strongly recommended,dna,�,�,�,x | ||
| target_subfragment,strongly recommended,dna,�,�,�,x | ||
| day,recommended,event,x,x/-,�,� | ||
| endDayOfYear,recommended,event,x,x/-,�,� | ||
| eventType,strongly recommended,event,x,�,�,� | ||
| eventRemarks,optional,event,x,x/-,�,� | ||
| eventTime,recommended,event,x,x/-,�,� | ||
| fieldNotes,optional,event,x,�,�,� | ||
| fieldNumber,optional,event,x,�,�,� | ||
| habitat,recommended,event,x,�,x,� | ||
| month,strongly recommended,event,x,x/-,�,� | ||
| parentEventID,required (if exists),event,x,-/x,�,� | ||
| sampleSizeUnit,strongly recommended,event,x^,x^/-,x,� | ||
| sampleSizeValue,strongly recommended,event,x^,x^/-,x,� | ||
| samplingEffort,strongly recommended,event,x^,x^/-,x,� | ||
| samplingProtocol,strongly recommended,event,x^,x^/-,x,� | ||
| startDayOfYear,recommended,event,x,�,�,� | ||
| verbatimEventDate,recommended,event,x,�,�,� | ||
| year,strongly recommended,event,x,x/-,�,� | ||
| bed,optional,geologicalContext,x,x/x,�,� | ||
| earliestAgeOrLowestStage,optional,geologicalContext,x,x/x,�,� | ||
| earliestEonOrLowestEonothem,optional,geologicalContext,x,x/x,�,� | ||
| earliestEpochOrLowestSeries,optional,geologicalContext,x,x/x,�,� | ||
| earliestEraOrLowestErathem,optional,geologicalContext,x,x/x,�,� | ||
| earliestPeriodOrLowestSystem,optional,geologicalContext,x,x/x,�,� | ||
| formation,optional,geologicalContext,x,x/x,�,� | ||
| group,optional,geologicalContext,x,x/x,�,� | ||
| highestBiostratigraphicZone,optional,geologicalContext,x,x/x,�,� | ||
| latestAgeOrHighestStage,optional,geologicalContext,x,x/x,�,� | ||
| latestEonOrHighestEonothem,optional,geologicalContext,x,x/x,�,� | ||
| latestEpochOrHighestSeries,optional,geologicalContext,x,x/x,�,� | ||
| latestEraOrHighestErathem,optional,geologicalContext,x,x/x,�,� | ||
| latestPeriodOrHighestSystem,optional,geologicalContext,x,x/x,�,� | ||
| lithostratigraphicTerms,optional,geologicalContext,x,x/x,�,� | ||
| lowestBiostratigraphicZone,optional,geologicalContext,x,x/x,�,� | ||
| member,optional,geologicalContext,x,x/x,�,� | ||
| dateIdentified,optional,identification,�,x/x,�,� | ||
| identificationID,optional,identification,�,x/x,�,� | ||
| identificationQualifier,recommended,identification,�,x/x,�,� | ||
| identificationReferences,optional (required for imaging data),identification,�,x/x,�,� | ||
| identificationRemarks,recommended,identification,�,x/x,�,� | ||
| identificationVerificationStatus,optional (required for imaging data),identification,�,x/x,�,� | ||
| identifiedBy,optional (required for imaging data),identification,�,x/x,�,� | ||
| identifiedByID,optional,identification,�,x/x,�,� | ||
| typeStatus,optional,identification,�,x/x,�,� | ||
| continent,strongly recommended,location,x,x/-,�,� | ||
| coordinatePrecision,strongly recommended,location,x,x/-,�,� | ||
| coordinateUncertaintyInMeters,strongly recommended,location,x,x/-,�,� | ||
| country,recommended,location,x,x/-,�,� | ||
| countryCode,optional,location,x,x/-,�,� | ||
| county,optional,location,x,x/-,�,� | ||
| footprintSpatialFit,optional,location,x,x/-,�,� | ||
| footprintSRS,optional,location,x,x/-,�,� | ||
| footprintWKT,recommended,location,x,x/-,�,� | ||
| geodeticDatum,recommended,location,x,x/-,�,� | ||
| georeferencedBy,optional,location,x,x/-,�,� | ||
| georeferencedDate,optional,location,x,x/-,�,� | ||
| georeferenceProtocol,optional,location,x,x/-,�,� | ||
| georeferenceSources,optional,location,x,x/-,�,� | ||
| higherGeography,optional,location,x,x/-,�,� | ||
| higherGeographyID,optional,location,x,x/-,�,� | ||
| island,optional,location,x,x/-,�,� | ||
| islandGroup,optional,location,x,x/-,�,� | ||
| locality,recommended,location,x,x/-,�,� | ||
| locationAccordingTo,recommended,location,x,x/-,�,� | ||
| locationID,strongly recommended,location,x,x/-,�,� | ||
| locationRemarks,recommended,location,x,x/-,�,� | ||
| maximumDepthInMeters,strongly recommended,location,x,x/-,�,� | ||
| maximumDistanceAboveSurfaceInMeters,optional,location,x,x/-,�,� | ||
| maximumElevationInMeters,optional,location,x,x/-,�,� | ||
| minimumDepthInMeters,strongly recommended,location,x,x/-,�,� | ||
| minimumDistanceAboveSurfaceInMeters,optional,location,x,x/-,�,� | ||
| minimumElevationInMeters,optional,location,x,x/-,�,� | ||
| municipality,optional,location,x,x/-,�,� | ||
| pointRadiusSpatialFit,optional,location,x,x/-,�,� | ||
| stateProvince,optional,location,x,x/-,�,� | ||
| verbatimCoordinates,optional,location,x,x/-,�,� | ||
| verbatimCoordinateSystem,optional,location,x,x/-,�,� | ||
| verbatimDepth,optional,location,x,x/-,�,� | ||
| verbatimElevation,optional,location,x,x/-,�,� | ||
| verbatimLatitude,optional,location,x,x/-,�,� | ||
| verbatimLocality,optional,location,x,x/-,�,� | ||
| verbatimLongitude,optional,location,x,x/-,�,� | ||
| verbatimSRS,optional,location,x,x/-,�,� | ||
| waterBody,recommended,location,x,x/-,�,� | ||
| materialSampleID,recommended,materialSample,�,x/x,�,� | ||
| measurementAccuracy,recommended,measurementOrFact,�,�,x,� | ||
| measurementDeterminedBy,optional,measurementOrFact,�,�,x,� | ||
| measurementDeterminedDate,optional,measurementOrFact,�,�,x,� | ||
| measurementID,recommended,measurementOrFact,�,�,x,� | ||
| measurementMethod,recommended,measurementOrFact,�,�,x,� | ||
| measurementRemarks,recommended,measurementOrFact,�,�,x,� | ||
| measurementType,strongly recommended,measurementOrFact,�,�,x,� | ||
| measurementTypeID,strongly recommended,measurementOrFact,�,�,x,� | ||
| measurementUnit,strongly recommended,measurementOrFact,�,�,x,� | ||
| measurementUnitID,strongly recommended,measurementOrFact,�,�,x,� | ||
| measurementValue,strongly recommended,measurementOrFact,�,�,x,� | ||
| measurementValueID,strongly recommended,measurementOrFact,�,�,x,� | ||
| associatedMedia,recommended,occurrence,�,x/x,�,� | ||
| associatedReferences,optional,occurrence,�,x/x,�,� | ||
| associatedSequences,recommended,occurrence,�,x/x,�,� | ||
| associatedTaxa,optional,occurrence,�,x/x,�,� | ||
| behavior,optional,occurrence,�,x^/x^,x,� | ||
| catalogNumber,recommended,occurrence,�,x/x,�,� | ||
| disposition,optional,occurrence,�,x/x,�,� | ||
| establishmentMeans,optional,occurrence,�,x/x,�,� | ||
| georeferenceVerificationStatus,recommended,occurrence,x,x/-,�,� | ||
| organismQuantity (preferred over individualCount),strongly recommended,occurrence,�,x^/x^,x,� | ||
| organismQuantityType (preferred over individualCount),strongly recommended,occurrence,�,x^/x^,x,� | ||
| individualCount,recommended,occurrence,�,x^/x^,x,� | ||
| lifeStage,optional,occurrence,�,x^/x^,x,� | ||
| occurrenceRemarks,recommended,occurrence,�,x/x,�,� | ||
| otherCatalogNumbers,optional,occurrence,�,x/x,�,� | ||
| preparations,optional,occurrence,�,x/x,�,� | ||
| recordedBy,recommended,occurrence,�,x/x,�,� | ||
| recordedByID,recommended,occurrence,�,x/x,�,� | ||
| recordNumber,recommended,occurrence,�,x/x,�,� | ||
| reproductiveCondition,optional,occurrence,�,x^/x^,x,� | ||
| sex,optional,occurrence,�,x^/x^,x,� | ||
| associatedOccurrences,optional,organsim,�,x/x,�,� | ||
| associatedOrganisms,optional,organsim,�,x/x,�,� | ||
| organismID,recommended,organsim,�,x/x,�,� | ||
| organismName,optional,organsim,�,x/x,�,� | ||
| organismRemarks,optional,organsim,�,x/x,�,� | ||
| organismScope,optional,organsim,�,x/x,�,� | ||
| previousIdentifications,recommended,organsim,�,x/x,�,� | ||
| accessRights,recommended,record,x,x/-,�,� | ||
| bibliographicCitation,recommended,record,x,x/-,�,� | ||
| collectionCode,optional,record,x,x/x,�,� | ||
| collectionID,optional,record,x,x/x,�,� | ||
| dataGeneralizations,optional,record,x,x/x,�,� | ||
| datasetID,recommended,record,x,x/x,�,� | ||
| datasetName,recommended,record,x,x/x,�,� | ||
| dynamicProperties,recommended,record,x,x/x,�,� | ||
| informationWithheld,optional,record,x,x/x,�,� | ||
| institutionCode,optional,record,x,x/x,�,� | ||
| institutionID,optional,record,x,x/x,�,� | ||
| language,recommended,record,x,x/x,�,� | ||
| license,strongly recommended,record,x,x/x,�,� | ||
| modified,recommended,record,x,x/x,�,� | ||
| ownerInstitutionCode,optional,record,x,x/x,�,� | ||
| references,recommended,record,x,x/x,�,� | ||
| rightsHolder,recommended,record,x,x/x,�,� | ||
| type,strongly recommended,record,x,x/x,x,� | ||
| acceptedNameUsage,recommended,taxon,�,x/x,�,� | ||
| acceptedNameUsageID,recommended,taxon,�,x/x,�,� | ||
| higherClassification,recommended,taxon,�,x/x,�,� | ||
| infraspecificEpithet,recommended,taxon,�,x/x,�,� | ||
| nameAccordingToID,recommended,taxon,�,x/x,�,� | ||
| namePublishedInID,optional,taxon,�,x/x,�,� | ||
| namePublishedInYear,optional,taxon,�,x/x,�,� | ||
| nomenclaturalCode,optional,taxon,�,x/x,�,� | ||
| nomenclaturalStatus,optional,taxon,�,x/x,�,� | ||
| verbatimIdentification,recommended,identification,,x/x,, | ||
| originalNameUsage,recommended,taxon,�,x/x,�,� | ||
| originalNameUsageID,recommended,taxon,�,x/x,�,� | ||
| parentNameUsage,recommended,taxon,�,x/x,�,� | ||
| parentNameUsageID,recommended,taxon,�,x/x,�,� | ||
| phylum,recommended,taxon,�,x/x,�,� | ||
| scientificNameAuthorship,recommended,taxon,�,x/x,�,� | ||
| specificEpithet,recommended,taxon,�,x/x,�,� | ||
| subgenus,recommended,taxon,�,x/x,�,� | ||
| taxonConceptID,optional,taxon,�,x/x,�,� | ||
| taxonID,optional,taxon,�,x/x,�,� | ||
| taxonomicStatus,optional,taxon,�,x/x,�,� | ||
| taxonRank,strongly recommended,taxon,�,x/x,�,� | ||
| taxonRemarks,recommended,taxon,�,x/x,�,� | ||
| verbatimTaxonRank,recommended,taxon,�,x/x,�,� | ||
| vernacularName,recommended,taxon,�,x/x,�,� | ||
| class,recommended,taxon,�,x/x,�,� | ||
| family,recommended,taxon,�,x/x,�,� | ||
| genus,strongly recommended,taxon,�,x/x,�,� | ||
| kingdom,strongly recommended,taxon,�,x/x,�,� | ||
| order,strongly recommended,taxon,�,x/x,�,� |
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| Original file line number | Diff line number | Diff line change |
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@@ -61,6 +61,12 @@ This manual provides a comprehensive walk-through on how to contribute data to O | |
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| The manual is designed to provide guidelines for OBIS nodes and data providers, ensuring that data published via OBIS are of high quality and adhere to internationally recognized standards. It also serves as a resource for data users on how to access, process, and visualize data from OBIS. See the [quick links](linklist.html) page for a quick reference to various guides, tools, and resources. | ||
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| <div class="callbox-blue"> | ||
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| `r fontawesome::fa(name="youtube", fill="red")` See the [OBIS YouTube](https://www.youtube.com/playlist?list=PLlgUwSvpCFS4TS7ZN0fhByj_3EBZ5lXbF) playlist for many helpful How-to videos! | ||
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| </div> | ||
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| The OBIS manual is a dynamic document and is revised on a regular basis. We welcome suggestions for additions and changes, which can be sent to [[email protected]](mailto:[email protected]), the OBIS Capacity Development Task Team at [[email protected]](mailto:[email protected]), and/or submitted as issues at <https://github.com/iobis/manual/issues>. | ||
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| ## Guidelines on the sharing and use of data in OBIS | ||
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