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diff --git a/rdf-documentation/dump-probeset-summary-stats.md b/rdf-documentation/dump-probeset-summary-stats.md deleted file mode 100644 index 422513b..0000000 --- a/rdf-documentation/dump-probeset-summary-stats.md +++ /dev/null @@ -1,60 +0,0 @@ -# Probeset Summary Statistics -## 'dump-probeset-data' - -## Generated Triples: - -The following SQL query was executed: - -```sql -SELECT CONCAT(ProbeSetFreeze.Name, '_', IF(NULLIF(TRIM(ProbeSet.Name), ProbeSet.Id) IS NULL, '', TRIM(ProbeSet.Name))) AS probesetData, IF(NULLIF(TRIM(ProbeSet.Name), '') IS NULL, '', TRIM(ProbeSet.Name)) AS ProbeSetIdName, ProbeSet.Id, IFNULL(ProbeSetXRef.mean, '') AS mean, ProbeSetXRef.Locus, IFNULL(ProbeSetXRef.LRS, '') AS lrs, IFNULL(ProbeSetXRef.additive, '') AS additive, IFNULL(ProbeSetXRef.se, '') AS stdErr, IFNULL(ProbeSetXRef.pValue, '') AS pValue, IFNULL(ProbeSetXRef.h2, '') AS h2, ProbeSetFreeze.Name FROM ProbeSetXRef LEFT JOIN ProbeSet ON ProbeSetXRef.ProbeSetId = ProbeSet.Id LEFT JOIN ProbeSetFreeze ON ProbeSetXRef.ProbeSetFreezeId = ProbeSetFreeze.Id WHERE ProbeSetFreeze.public > 0 AND ProbeSetFreeze.confidentiality < 1 -``` - -The above query results to triples that have the form: - -```text -gn:Probesetdata -> rdf:type -> gnc:probesetStatistics -gn:Probesetdata -> gnt:hasProbeSet -> gn:probeset_probesetidname -gn:Probesetdata -> gnt:mean -> "mean"^^xsd:double -gn:Probesetdata -> gnt:locus -> ProbeSetXRef(Locus) -gn:Probesetdata -> gnt:LRS -> "lrs"^^xsd:double -gn:Probesetdata -> gnt:additive -> "additive"^^xsd:double -gn:Probesetdata -> gnt:stdErr -> "stdErr"^^xsd:double -gn:Probesetdata -> gnt:pValue -> "pValue"^^xsd:double -gn:Probesetdata -> gnt:h2 -> "h2"^^xsd:double -gn:Probesetdata -> gnt:belongsToDataset -> gn:Probesetfreeze_name_ -``` -Here's an example query: - -```sparql -PREFIX gn: <http://genenetwork.org/id/> -PREFIX gnc: <http://genenetwork.org/category/> -PREFIX gnt: <http://genenetwork.org/id/> -PREFIX skos: <http://www.w3.org/2004/02/skos/core#> -PREFIX owl: <http://www.w3.org/2002/07/owl#> -PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> -PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> -PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> - -SELECT * WHERE { - ?s rdf:type gnc:probesetStatistics . - ?s gnt:hasProbeSet gn:probeset_100001_at . - ?s gnt:mean #{"8.14033666666667"^^xsd:double}# . - ?s gnt:locus "rsm10000021399" . - ?s ?p ?o . -} -``` - -Expected Result: - -```rdf -gn:Hc_u_0304_r_100001_at rdf:type gnc:probesetStatistics . -gn:Hc_u_0304_r_100001_at gnt:hasProbeSet gn:probeset_100001_at . -gn:Hc_u_0304_r_100001_at gnt:mean "8.14033666666667"^^xsd:double . -gn:Hc_u_0304_r_100001_at gnt:locus "rsm10000021399" . -gn:Hc_u_0304_r_100001_at gnt:LRS "12.2805314427567"^^xsd:double . -gn:Hc_u_0304_r_100001_at gnt:additive "0.0803547619047631"^^xsd:double . -gn:Hc_u_0304_r_100001_at gnt:stdErr "0.023595817125580502"^^xsd:double . -gn:Hc_u_0304_r_100001_at gnt:pValue "0.118"^^xsd:double . -gn:Hc_u_0304_r_100001_at gnt:belongsToDataset gn:Hc_u_0304_r . -``` - |