| Age | Commit message (Expand) | Author |
|---|
| 2023-10-16 | Group genotype labels together....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-10-16 | Add a prefLabel for gnc:Probeset....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-10-16 | Fix typo....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-10-03 | Classify pheno/genotype and probeset datasets using dcat:Dataset....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-28 | quit 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 |
| 2023-09-11 | Add genbank dump....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-11 | Update generif metadata dump....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-09-11 | Filter out empty symbols when dumping generif metadata....Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-30 | Delete this probeset-data tranform...* examples/probeset-data.scm: Delete.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-30 | Add extra mappings for broken utf-8 characters to be replaced...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-30 | Add an extra alias to InbredSet.InbredSetName...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-30 | Remodel 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 |
| 2023-08-28 | Set string->identifier to defaut to "" sep and string-capitalize...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Update how generif metadata is dumped...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Update how strains are dumped...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Update how genotypes are transformed...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Add qb: and sdmx-measure: prefixes...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Update phenotype dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Replace gnc:probeset with gnc:Probeset...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Update how datasets are dumped...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Fix typo...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Replace gnt:belongsToSpecies/Set with xkos:classifiedUnder...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Replace gnc:Type with gnc:DatasetType...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Use the correct name for the Species...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Replace gnt:belongsToSpecies with xkos:classifiedUnder...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Re-introduce gnt:shortName...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Treat strings wrapped in "()" as symbols...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Rename file...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-28 | Add new file with classification hierarchy ontology...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-25 | Replace gdmt: with dcat:...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-24 | Remove match-case for RDF-FILE...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-24 | Add new methods for bulk-loading data...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-24 | Delete 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 |
| 2023-08-23 | Add all transformers as inputs to transform-with-documentation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-23 | Update how NCBI genewiki entries are transformed...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-23 | Update how symbols from GeneRIF_BASIC are transformed...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-23 | Delete blank-node construct...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-23 | Add foaf prefix when transforming generif data...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-23 | Update how gn-specific genewiki entries are transformed...Each comment is identified using a unique uuid so that we can identify
it's metadata I.e time, author, symbol, etc.
| Munyoki Kilyungi |
| 2023-08-23 | Add extra utility fn for removing duplicates...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-23 | Add an extra module for generating unique ids...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Replace gnt:traitName with rdfs:label...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Delete gnt:hasAcknowledgement from InfoFiles...We fetch all our metadata from the Datasets table.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Add missing function...* examples/dataset-metadata.scm (remap-species-identifiers): New function.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Remove hard-coded paths...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Rename dump -> transform...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Remove "dump-" prefix...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Rename define-dump -> define-transformer...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Replace inbredSet with set as the string-identifier...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-08-21 | Move dumps related to datasets to one place...* examples/dump-dataset-metadata.scm: Add dump-gene-chip,
dump-publishfreeze, dump-genofreeze, dump-probesetfreeze
* examples/dump-genotype.scm: Delete dump-genofreeze.
* examples/dump-phenotype.scm: Delete dump-publishfreeze.
* examples/dump-probesetfreeze.scm: Delete file
| Munyoki Kilyungi |
