diff options
Diffstat (limited to 'bh20sequploader')
| -rw-r--r-- | bh20sequploader/bh20seq-options.yml | 22 | ||||
| -rw-r--r-- | bh20sequploader/bh20seq-schema.yml | 7 | ||||
| -rw-r--r-- | bh20sequploader/bh20seq-shex.rdf | 2 |
3 files changed, 25 insertions, 6 deletions
diff --git a/bh20sequploader/bh20seq-options.yml b/bh20sequploader/bh20seq-options.yml index 4c1d15c..104ed6c 100644 --- a/bh20sequploader/bh20seq-options.yml +++ b/bh20sequploader/bh20seq-options.yml @@ -17,11 +17,11 @@ host_sex: host_health_status: healthy: http://purl.obolibrary.org/obo/NCIT_C115935 - asymptomatic: http://purl.obolibrary.org/obo/NCIT_C3833 - sympotmatic: http://purl.obolibrary.org/obo/NCIT_C25269 - admitted to hospital: http://purl.obolibrary.org/obo/GENEPIO_0002020 - discharged from hospital: http://purl.obolibrary.org/obo/GENEPIO_0001849 - dead: http://purl.obolibrary.org/obo/NCIT_C28554 + asymptomatic: http://purl.obolibrary.org/obo/NCIT_C3833 + symptomatic: http://purl.obolibrary.org/obo/NCIT_C25269 + admitted to hospital: http://purl.obolibrary.org/obo/GENEPIO_0002020 + discharged from hospital: http://purl.obolibrary.org/obo/GENEPIO_0001849 + dead: http://purl.obolibrary.org/obo/NCIT_C28554 alive: http://purl.obolibrary.org/obo/NCIT_C37987 sample_sequencing_technology: @@ -47,6 +47,18 @@ sample_sequencing_technology2: Oxford Nanopore Sequencing: http://purl.obolibrary.org/obo/NCIT_C146818 Sanger dideoxy sequencing: http://purl.obolibrary.org/obo/NCIT_C19641 +sample_sequencing_technology3: + Illumina NextSeq 500: http://www.ebi.ac.uk/efo/EFO_0009173 + Illumina NextSeq 550: http://www.ebi.ac.uk/efo/EFO_0008566 + Illumina HiSeq X: http://www.ebi.ac.uk/efo/EFO_0008567 + Illumina MiSeq: http://www.ebi.ac.uk/efo/EFO_0004205 + Illumina: http://purl.obolibrary.org/obo/OBI_0000759 + IonTorrent: http://purl.obolibrary.org/obo/NCIT_C125894 + Ion Semiconductor Sequencing: http://purl.obolibraryorg/obo/NCIT_C125894 + Oxford Nanopore MinION: http://www.ebi.ac.uk/efo/EFO_0008632 + Oxford Nanopore Sequencing: http://purl.obolibrary.org/obo/NCIT_C146818 + Sanger dideoxy sequencing: http://purl.obolibrary.org/obo/NCIT_C19641 + specimen_source: nasopharyngeal swab: http://purl.obolibrary.org/obo/NCIT_C155831 oropharyngeal swab: http://purl.obolibrary.org/obo/NCIT_C155835 diff --git a/bh20sequploader/bh20seq-schema.yml b/bh20sequploader/bh20seq-schema.yml index 9a89979..a54ddb1 100644 --- a/bh20sequploader/bh20seq-schema.yml +++ b/bh20sequploader/bh20seq-schema.yml @@ -157,6 +157,13 @@ $graph: _id: http://purl.obolibrary.org/obo/OBI_0600047 _type: "@id" noLinkCheck: true + sample_sequencing_technology3: + doc: Technology that was used to sequence this sample (e.g Sanger, Nanopor MiniION) + type: string? + jsonldPredicate: + _id: http://purl.obolibrary.org/obo/OBI_0600047 + _type: "@id" + noLinkCheck: true sequence_assembly_method: doc: Protocol which provides instructions on the alignment of sequencing reads to reference genome type: string? diff --git a/bh20sequploader/bh20seq-shex.rdf b/bh20sequploader/bh20seq-shex.rdf index 246fd57..953e27a 100644 --- a/bh20sequploader/bh20seq-shex.rdf +++ b/bh20sequploader/bh20seq-shex.rdf @@ -53,7 +53,7 @@ PREFIX wikidata: <http://www.wikidata.org/entity/> } :technologyShape { - obo:OBI_0600047 IRI {0,2} ; + obo:OBI_0600047 IRI {0,3} ; efo:EFO_0002699 xsd:string ?; obo:FLU_0000848 xsd:double {0,2}; sio:SIO_001167 xsd:string ?; |