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2023-11-21Delete un-necessary predicates from ProbeSet transform....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-11-20Add "gnt:belongsToSpecies" and "gnt:belongsToGroup" gn terms....These terms are useful when constructing a graph for framing purposes in json-ld. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-11-17Remove "FamilyOrder" join when transforming Species table....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-11-17Capitalize InbredSetName id's consistently.Munyoki Kilyungi
2023-11-17Make species identifiers consistent....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-11-17Revert "Make Phenotypy InbredSet classification consistent."...This reverts commit 092b9b4967133fc5a04d9fbf2255f4ce07dedb8b. Munyoki Kilyungi
2023-11-17Make Phenotypy InbredSet classification consistent....* examples/phenotype.scm (phenotypes): Remove "separator" and "proc" args. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-20Use the correct URL for "gnt:" prefix....* examples/phenotype.scm (option-spec): Replace http://genenetwork.org/terms/ with http://genenetwork.org/term/. * examples/publication.scm (option-spec): Ditto. * examples/tissue.scm (option-spec): Ditto. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-20Alias Publication.Id to PublicationId...Using "(field Publication Id)" will somehow default to PublishXRef.Id. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-19Use InbredSetCode instead of Name when creating a trait name....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-19Check (Publish/Geno)Freeze for InbredSet if NULL in InfoFiles....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-19Remove un-necessary WHERE clause when dumping phenotypes....* examples/phenotype.scm (phenotypes): Delete "WHERE" clause. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-19Add missing xkos prefix in phenotype dump....* examples/phenotype.scm (with-documentation): Add "xkos:" to prefixes. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-17Index text when loading data....* load-rdf.scm (bulk-load-data): Remove "quit;". This will be done after indexing. (index-data): New function (main): Add index-data. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-17Replace skos:prefLabel with rdfs:label for genotypes....* examples/genotype.scm (genotypes)[triples]: Replace skos:prefLabel with rdfs:label. Munyoki Kilyungi
2023-10-16Group genotype labels together....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-16Add a prefLabel for gnc:Probeset....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-16Fix typo....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-10-03Classify pheno/genotype and probeset datasets using dcat:Dataset....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-09-28quit after bulk-loading triples....* load-rdf.scm (bulk-load-data): Add "quit;" to bulk-load-data command. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-09-11Add genbank dump....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-09-11Update generif metadata dump....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-09-11Filter out empty symbols when dumping generif metadata....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-30Delete this probeset-data tranform...* examples/probeset-data.scm: Delete. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-30Add extra mappings for broken utf-8 characters to be replaced...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-30Add an extra alias to InbredSet.InbredSetName...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-30Remodel how GeneRIF metadata is transformed...* examples/generif.scm: Import (ice-9 format). (genewiki-symbols): Transform symbols and their names only. This way there's no need to transform the symbol names in the other names thereby preventing duplication. (gn-genewiki-entries): Use format strings to create the comment blank-node. (ncbi-genewiki-entries): Ditto. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Set string->identifier to defaut to "" sep and string-capitalize...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Update how generif metadata is dumped...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Update how strains are dumped...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Update how genotypes are transformed...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Add qb: and sdmx-measure: prefixes...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Update phenotype dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Replace gnc:probeset with gnc:Probeset...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Update how datasets are dumped...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Fix typo...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Replace gnt:belongsToSpecies/Set with xkos:classifiedUnder...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Replace gnc:Type with gnc:DatasetType...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Use the correct name for the Species...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Replace gnt:belongsToSpecies with xkos:classifiedUnder...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Re-introduce gnt:shortName...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Treat strings wrapped in "()" as symbols...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Rename file...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-28Add new file with classification hierarchy ontology...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-25Replace gdmt: with dcat:...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-24Remove match-case for RDF-FILE...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-24Add new methods for bulk-loading data...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-24Delete http methods for adding data...* load-rdf.scm (random-cnonce, md5-digest-authorization, http-upload-file, put-graph, delete-graph): Delete (main): Remove call to put-graph. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-23Add all transformers as inputs to transform-with-documentation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
2023-08-23Update how NCBI genewiki entries are transformed...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> Munyoki Kilyungi
generated by cgit v1.2.3 (git 2.46.2) at 2025-02-04 00:25:08 +0000