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Add combined networks to biobanks (#4512)
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* Fix CSV formatting

* Add combined_network attribute

* Typos

* Clarify description

* Add combined_network to demo data
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hslh authored Nov 22, 2024
1 parent 035c724 commit 3f78914
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6 changes: 3 additions & 3 deletions data/biobank-directory/demo/Biobanks.csv
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@@ -1,3 +1,3 @@
id,pid,name,acronym,description,url,location,country,latitude,longitude,head,contact,juridical_person,network,also_known,services,collaboration_commercial,collaboration_non_for_profit,national_node,withdrawn
bbmri-eric:ID:DE_biobank1,pid_biobank1,Biobank1,bb1,The description of biobank1,,Berlin,DE,,,bbmri-eric:contactID:DE_head_bb1,bbmri-eric:contactID:contact_bb1,A university,bbmri-eric:networkID:DE_network1,bbmri-eric:akiID:DE_00001,"bbmri-eric:serviceID:DE_1234",true,false,DE,false
bbmri-eric:ID:NL_biobank2,pid_biobank2,Biobank2,bb2,The description of biobank2,,Amsterdam,NL,,,bbmri-eric:contactID:NL_person1,bbmri-eric:contactID:NL_person1,An institute,bbmri-eric:networkID:EU_network,bbmri-eric:akiID:NL_00001,"bbmri-eric:serviceID:NL_541",false,true,NL,false
id,pid,name,acronym,description,url,location,country,latitude,longitude,head,contact,juridical_person,network,combined_network,also_known,services,collaboration_commercial,collaboration_non_for_profit,national_node,withdrawn
bbmri-eric:ID:DE_biobank1,pid_biobank1,Biobank1,bb1,The description of biobank1,,Berlin,DE,,,bbmri-eric:contactID:DE_head_bb1,bbmri-eric:contactID:contact_bb1,A university,bbmri-eric:networkID:DE_network1,bbmri-eric:networkID:DE_network1,bbmri-eric:akiID:DE_00001,"bbmri-eric:serviceID:DE_1234",true,false,DE,false
bbmri-eric:ID:NL_biobank2,pid_biobank2,Biobank2,bb2,The description of biobank2,,Amsterdam,NL,,,bbmri-eric:contactID:NL_person1,bbmri-eric:contactID:NL_person1,An institute,bbmri-eric:networkID:EU_network,bbmri-eric:networkID:EU_network,bbmri-eric:akiID:NL_00001,"bbmri-eric:serviceID:NL_541",false,true,NL,false
17 changes: 9 additions & 8 deletions data/biobank-directory/molgenis.csv
Original file line number Diff line number Diff line change
Expand Up @@ -28,7 +28,8 @@ Biobanks,,longitude,Longitude,string,,false,,"Longitude of the biobank in the WG
Biobanks,,head,Head of the Biobank,ref,,false,,Person in charge of the biobank.,,Persons,,${email},,,,,
Biobanks,,contact,Contact Person,ref,,true,,Contact person of the biobank.,,Persons,,${email},,,,,
Biobanks,,juridical_person,Juridical Person,string,,true,,Juristic person of a biobank according to MIABIS 2.0 - MIABIS-2.0-05.,,,,,,,,,
Biobanks,,network,Networks,ref_array,,false,,"Reference to a biobank network ID, to which the biobank belongs; this attribute can also be used for biobank network, where it refers to the superior biobank network.",,Networks,,${name},,,,,
Biobanks,,network,Networks,ref_array,,false,,"Reference to a biobank network ID, to which the biobank belongs.",,Networks,,${name},,,,,
Biobanks,,combined_network,Combined Network,ref_array,,false,,"Reference to one or more network IDs, to which the biobank belongs directly or indirectly (i.e., either the biobank is explicitly marked as part of the network or its network is).",,Networks,,${name},,,,,
Biobanks,,also_known,Also Known In,ref_array,,false,,The biobank also exists in …,,AlsoKnownIn,,${name_system},,,,,
Biobanks,,collections,Collections,refback,,false,,Collections belonging to the biobank.,,Collections,biobank,${name},,,,,
Biobanks,,services,Services,ref_array,,false,,Capabilities and services that the biobank organisation can offer to a researcher.,,Services,,${name},,,,,
Expand Down Expand Up @@ -75,8 +76,8 @@ Collections,,belongs_to,Belongs to,heading,,false,,The collection belongs to ...
Collections,,parent_collection,Parent Collection,ref,,false,,"Reference to a collection ID, refers to the superior collection.",,Collections,,${name},,,,,
Collections,,sub_collections,Sub Collections,refback,,false,,"Reference to a collection ID, refers to one or more sub-collections.",,Collections,parent_collection,${name},,,,,
Collections,,biobank,Biobank,ref,,true,,"Reference to a biobank ID, to which the collection belongs.",,Biobanks,,${name},,,,,
Collections,,biobank_label,Biobank Label,string,,true,,"Name of the biobank, to which the collection belongs to.",,,,,,,,,
Collections,,network,Network,ref_array,,false,,"Reference to a network ID, to which the collection belongs to.",,Networks,,${name},,,,,
Collections,,biobank_label,Biobank Label,string,,true,,"Name of the biobank, to which the collection belongs.",,,,,,,,,
Collections,,network,Network,ref_array,,false,,"Reference to a network ID, to which the collection belongs.",,Networks,,${name},,,,,
Collections,,combined_network,Combined Network,ref_array,,false,,"Reference to one or more network IDs, to which the collection belongs directly or indirectly (i.e., either the collection is explicitly marked as part of the network or its biobank is).",,Networks,,${name},,,,,
Collections,,also_known,Also Known In,ref_array,,false,,The collection also exists in …,,AlsoKnownIn,,${name_system},,,,,
Collections,,studies,Studies,ref_array,,false,,A link to studies during which the collection was generated,,Studies,,${title},,,,,
Expand Down Expand Up @@ -171,23 +172,23 @@ QualityInfoServices,,assessmentLevel,Assessment Level,ontology,,true,,,Directory
QualityInfoServices,,certificationNumber,Certification Number,string,,false,,,,,,,,,,,
QualityInfoServices,,certificationReport,Certification Report,hyperlink,,false,,,,,,,,,,,
QualityInfoServices,,certificationImageLink,Certification Image,hyperlink,,false,,,,,,,,,,,
Services,,,,,,,,Biobank Capabilities and Services
Services,,id,ID,string,1,true,,"Unique ID of the service, prefixed with bbmri-eric:serviceID:"
Services,,,,,,,,Biobank Capabilities and Services,,,,,,,,,
Services,,id,ID,string,1,true,,"Unique ID of the service, prefixed with bbmri-eric:serviceID:",,,,,,,,,
Services,,name,Service Name,string,2,true,,Name of the service (preferably in English).,,,,,,,,,
Services,,serviceTypes,Service Types,ref_array,,true,,Related service types,DirectoryOntologies,ServiceTypes,,${label}
Services,,serviceTypes,Service Types,ref_array,,true,,Related service types,DirectoryOntologies,ServiceTypes,,${label},,,,,
Services,,acronym,Acronym,string,,false,,Short name in use for the service. If applicable.,,,,,,,,,
Services,,description,Description,string,,true,,Full description of the service (in English),,,,,,,,,
Services,,descriptionUrl,Description URL,hyperlink,,false,,URL address of the service description if available.,,,,,,,,,
Services,,device,Device,string,,false,,Name of the device(s) if the service is provided with the use of them.,,,,,,,,,
Services,,deviceSystem,Device System,string,,false,,Name of a software system or platform if important for the device characteristics.,,,,,,,,,
Services,,tRL,Technology Readiness Level ,ontology,,false,,Technology Readiness Level - a concept for self-assessment of the service maturity,DirectoryOntologies,TRLs,,${label},,,,,
Services,,tRL,Technology Readiness Level,ontology,,false,,Technology Readiness Level - a concept for self-assessment of the service maturity,DirectoryOntologies,TRLs,,${label},,,,,
Services,,accessDescription,Access Description,string,,true,,Description of the access policy of the service.,,,,,,,,,
Services,,accessDescriptionUrl,Access Description URL,hyperlink,,false,,URL of the service access policy if available..,,,,,,,,,
Services,,unitOfAccess,Unit of Access,string,,false,,Information about a standard unit used in calculations of costs of service provision.,,,,,,,,,
Services,,accessDescription,Access Description,string,,true,,Description of the access policy of the service,,,,,,,,,
Services,,unitCost,Unit Cost,string,,false,,Cost per unit.,,,,,,,,,
Services,,qualityStandards,Quality Standards,refback,,false,true,The standards and/or technical specifications that the service is certified or accredited for.,,QualityInfoServices,service,${qualityStandard.label},,,,,
Services,,contactInformation,Contact Information,ref,,false,,Contact information for the contact person or responsible person of the service ,,Persons,
Services,,contactInformation,Contact Information,ref,,false,,Contact information for the contact person or responsible person of the service,,Persons,,,,,,,
Services,,national_node,National Node,ref,,true,,The study originates from this national node.,,NationalNodes,,${description},,,,,
Studies,,,,,,,,Table with information about the studies in which context the collection was generated,,,,,,,,,
Studies,,id,ID,string,1,true,,"Unique ID of the study, prefixed with bbmri-eric:studyID:<id_of_the_study>",,,,,,,,,
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