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| author | Peter Amstutz | 2020-04-20 14:57:25 -0400 |
|---|---|---|
| committer | Peter Amstutz | 2020-04-20 14:57:25 -0400 |
| commit | 9ddcfeacb3191638f42b08af999889d867f0f81c (patch) | |
| tree | 4cfe4c2b1df38bf6e5c79f5f8c0700407f76a472 /bh20sequploader | |
| parent | d29dfd593233541b85c1cefb239650279d57d59f (diff) | |
| download | bh20-seq-resource-9ddcfeacb3191638f42b08af999889d867f0f81c.tar.gz bh20-seq-resource-9ddcfeacb3191638f42b08af999889d867f0f81c.tar.lz bh20-seq-resource-9ddcfeacb3191638f42b08af999889d867f0f81c.zip | |
Better handling of duplicate sequences
Also save original fasta label in metadata
Diffstat (limited to 'bh20sequploader')
| -rw-r--r-- | bh20sequploader/bh20seq-schema.yml | 11 |
1 files changed, 10 insertions, 1 deletions
diff --git a/bh20sequploader/bh20seq-schema.yml b/bh20sequploader/bh20seq-schema.yml index 64008f2..982447c 100644 --- a/bh20sequploader/bh20seq-schema.yml +++ b/bh20sequploader/bh20seq-schema.yml @@ -18,6 +18,7 @@ $graph: jsonldPredicate: _id: http://www.ebi.ac.uk/efo/EFO_0000532 _type: "@id" + identity: true host_id: doc: Identifer for the host. If you submit multiple samples from the same host, use the same host_id for those samples type: string @@ -29,6 +30,7 @@ $graph: jsonldPredicate: _id: http://purl.obolibrary.org/obo/PATO_0000047 _type: "@id" + identity: true host_age: doc: Age of the host as number (e.g. 50) type: int? @@ -40,6 +42,7 @@ $graph: jsonldPredicate: _id: http://purl.obolibrary.org/obo/NCIT_C42574 _type: "@id" + identity: true host_health_status: doc: A condition or state at a particular time type: string? @@ -79,12 +82,14 @@ $graph: jsonldPredicate: _id: http://purl.obolibrary.org/obo/OBI_0001479 _type: "@id" + identity: true specimen_source2: doc: Method how the specimen was derived as NCIT IRI, e.g. http://purl.obolibrary.org/obo/NCIT_C155835 (=throat swabb) type: string? jsonldPredicate: _id: http://purl.obolibrary.org/obo/OBI_0001479 _type: "@id" + identity: true collection_date: doc: Date when the sample was taken type: string @@ -96,6 +101,7 @@ $graph: jsonldPredicate: _id: http://purl.obolibrary.org/obo/GAZ_00000448 _type: "@id" + identity: true sample_storage_conditions: doc: Information about storage of a specified type, e.g. frozen specimen, paraffin, fresh .... type: string? @@ -126,6 +132,7 @@ $graph: jsonldPredicate: _id: http://edamontology.org/data_1875 _type: "@id" + identity: true virus_strain: doc: Name of the virus strain type: string? @@ -141,12 +148,14 @@ $graph: jsonldPredicate: _id: http://purl.obolibrary.org/obo/OBI_0600047 _type: "@id" + identity: true sample_sequencing_technology2: 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" + identity: true sequence_assembly_method: doc: Protocol which provides instructions on the alignment of sequencing reads to reference genome type: string? @@ -215,7 +224,7 @@ $graph: jsonldPredicate: _id: http://semanticscience.org/resource/SIO_000115 _type: "@id" - noLinkCheck: true + identity: true - name: MainSchema type: record |