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2023-07-30Add dct: prefix to genotype dumpMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update phenotype dumpMunyoki Kilyungi
2023-07-30Dump probesetfreeze metadata using new metadataMunyoki Kilyungi
2023-07-30Dump probeset-metadata using the new syntaxMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump genotypes with the new syntaxMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use "gn:" and "gn-term:" when dumping phenotypesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace "publication:" with "pubmed:"Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use "gn:" and "gn-terms" prefixesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Make 'inputs' and 'outputs' fields listsMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Remove unnecessary prefixesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Rename 'gn-id' prefix to 'gn'Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump phenotypes with documentation.Munyoki Kilyungi
2023-07-30Dump probeset metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update tissue dump to use gn-term/gn-idMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace gn with gn-term and gn-id where suitableMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace gn:species with gn-speciesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update dump-species to have lists for inputs and outputMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Add "gn:species:" prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Capitalize species identifierMunyoki Kilyungi
Replace gn:species_mus_musculus with gn:species:Mus_musculus.
2023-07-30Dump dataset metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump publication metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump tissue metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump species metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Remap identifiersPjotr Prins
2023-07-30Remap identifiersPjotr Prins
2023-07-21Add dct: prefix to genotype dumpMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Update phenotype dumpMunyoki Kilyungi
2023-07-21Dump probesetfreeze metadata using new metadataMunyoki Kilyungi
2023-07-21Dump probeset-metadata using the new syntaxMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Dump genotypes with the new syntaxMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Use "gn:" and "gn-term:" when dumping phenotypesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Replace "publication:" with "pubmed:"Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Use "gn:" and "gn-terms" prefixesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Make 'inputs' and 'outputs' fields listsMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Remove unnecessary prefixesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Rename 'gn-id' prefix to 'gn'Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Dump phenotypes with documentation.Munyoki Kilyungi
2023-07-21Dump probeset metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Update tissue dump to use gn-term/gn-idMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Replace gn with gn-term and gn-id where suitableMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Replace gn:species with gn-speciesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Update dump-species to have lists for inputs and outputMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Add "gn:species:" prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Capitalize species identifierMunyoki Kilyungi
Replace gn:species_mus_musculus with gn:species:Mus_musculus.
2023-07-21Dump dataset metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Dump publication metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Dump tissue metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-21Dump species metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-06-19Chunk probeset dumpMunyoki Kilyungi
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>
2023-06-12Add a dataset's full name when dumpingMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
generated by cgit v1.2.3 (git 2.44.0) at 2024-11-05 12:09:26 +0000