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| author | Munyoki Kilyungi | 2023-06-05 22:35:49 +0300 |
|---|---|---|
| committer | BonfaceKilz | 2023-06-12 19:06:36 +0300 |
| commit | aabe2fcc6b9e48269b0051bf115093d974d10065 (patch) | |
| tree | 03901ac02c35ed9ed1a0b82946af741f6530d529 /examples/dump-species-metadata.scm | |
| parent | 87a0616ab9ca1e2a32348e243e96f06a1bb6e204 (diff) | |
| download | gn-transform-databases-aabe2fcc6b9e48269b0051bf115093d974d10065.tar.gz | |
Use NCBI taxonomy browser instead of uniprot
NCBI presents data in a user friendly way from the taxid. To get the
same data from uniprot, you need a unique identify which requires an
extra query to retrieve.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
Diffstat (limited to 'examples/dump-species-metadata.scm')
| -rwxr-xr-x | examples/dump-species-metadata.scm | 4 |
1 files changed, 2 insertions, 2 deletions
diff --git a/examples/dump-species-metadata.scm b/examples/dump-species-metadata.scm index ed4113c..2937c80 100755 --- a/examples/dump-species-metadata.scm +++ b/examples/dump-species-metadata.scm @@ -34,7 +34,7 @@ (set gn:displayName (field Species MenuName)) (set gn:binomialName (field Species FullName)) (set gn:family (field Species Family)) - (set up:organism (ontology 'taxon: (field Species TaxonomyId))))) + (set gn:organism (ontology 'ncbiTaxon: (field Species TaxonomyId))))) (define-dump dump-strain (tables (Strain @@ -128,7 +128,7 @@ (prefix "pubmed:" "<http://rdf.ncbi.nlm.nih.gov/pubmed/>") (prefix "rdf:" "<http://www.w3.org/1999/02/22-rdf-syntax-ns#>") (prefix "rdfs:" "<http://www.w3.org/2000/01/rdf-schema#>") - (prefix "taxon:" "<http://purl.uniprot.org/taxonomy/>") + (prefix "ncbiTaxon:" "<https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=>") (prefix "uniprot:" "<http://purl.uniprot.org/uniprot/>") (prefix "up:" "<http://purl.uniprot.org/core/>") (prefix "xsd:" "<http://www.w3.org/2001/XMLSchema#>") |