| Age | Commit message (Expand) | Author |
|---|---|---|
| 2023-07-21 | Add dct: prefix to genotype dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Update phenotype dump | Munyoki Kilyungi |
| 2023-07-21 | Dump probesetfreeze metadata using new metadata | Munyoki Kilyungi |
| 2023-07-21 | Dump probeset-metadata using the new syntax...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Dump genotypes with the new syntax...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Use "gn:" and "gn-term:" when dumping phenotypes...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Replace "publication:" with "pubmed:"...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Use "gn:" and "gn-terms" prefixes...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Make 'inputs' and 'outputs' fields lists...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Remove unnecessary prefixes...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Rename 'gn-id' prefix to 'gn'...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Dump phenotypes with documentation. | Munyoki Kilyungi |
| 2023-07-21 | Dump probeset metadata with documentation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Update tissue dump to use gn-term/gn-id...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Replace gn with gn-term and gn-id where suitable...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Replace gn:species with gn-species...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Update dump-species to have lists for inputs and output...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Add "gn:species:" prefix...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Capitalize species identifier...Replace gn:species_mus_musculus with gn:species:Mus_musculus. | Munyoki Kilyungi |
| 2023-07-21 | Dump dataset metadata with documentation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Dump publication metadata with documentation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Dump tissue metadata with documentation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-07-21 | Dump species metadata with documentation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-19 | Chunk probeset dump...The probeset table has many columns, with about 5Million rows. As such, the dump can be huge. One problem with the dump is that rapper fails with an out-of-memory error. This commit chunks the data to make linting and uploading data more manageable. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Add a dataset's full name when dumping...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Use PublishFreeze Name as a fallback for InfoPageName...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Annotate a phenotype dataset with 'dataset:...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Replace "Unknown" in Publication fields with an empty string...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Annotate publications without a pmid with "unpublished"...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Use "publication:" as an identifier for publications...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Remove check for confidentiality/publicity during dataset dump...Should a dataset not be confidential/public, it's marked as private. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Add geoPlatfrom to dataset dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Add missing Species join when dumping datasets...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Use the correct title for the a dataset...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Rename AboutProcessing alias to AboutDataProcessing...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Replace citations to source from Datasets instead of InfoFiles...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Rename sql-alias of GN notes during dataset dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Add rdf defs for datasetOfSpecies...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Add publicationTitle to dataset dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Make geoSeries a link during dataset dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Minor identation fix...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Add organization to dataset dump...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | 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> | Munyoki Kilyungi |
| 2023-06-12 | Cast longtext fields to fix broket utf-8 characters...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Remove dead comments...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Remove "^[Nn]one$" from some fields from the InfoFiles table...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Default to InfoFiles with the Dataset being a fallback for citations...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-06-12 | Make ((g/ph)enotype/probeset)Dataset subset of Dataset...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-05-30 | Dump OMIM as a normal string without any annotation...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
| 2023-05-30 | Fix broken utf-8 strings in abstract field...Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | Munyoki Kilyungi |
 |
index : gn-transform-databases | |
| Data transformers for GeneNetwork (particularly to RDF) |
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