The VFB scRNAseq ontology files contain scRNAseq data to be loaded into VFB.
This information is taken from FlyBase, which sources it from the EMBL-EBI Single Cell Expression Atlas, which compiles scRNAseq data from multiple sources.
For incorporation into VFB, datasets are filtered to only include those with some nervous system component(s) and only wild-type data.
Due to size, data is split by dataset. Metadata files with non-expression (external ontology) imports merged in and no import statements are in metadata_release_files, unmerged metadata files that import their respective gene expression files (as well as external ontologies) are in src/ontology/ontology_files. Compressed gene expression files are in src/ontology/expression_data and can be uncompressed locally using sh run.sh make unzip_exp_files (assuming you are using ODK). While it is technically possible to open this all as one ontology by opening src/ontology/VFB_scRNAseq-edit.ofn, this is not recommended due to large size and memory requirements.
The -edit version, src/ontology/VFB_scRNAseq-edit.ofn, is autogenerated and should not be manually edited.
Please use this GitHub repository's Issue tracker to report errors or specific concerns related to the ontology.
This ontology repository was created using the Ontology Development Kit (ODK).