SCP Convention - Required Metadata
Studies uploaded using the SCP Metadata convention must include the following required metadata:
Metadata Name | Content | Description |
---|---|---|
NAME | string | unique identifier for each cell in the study. Must be the first column in a metadata file |
biosample_id | string | unique identifier for each sample in the study |
donor_id | string | unique identifier for each biosample donor in the study |
species | ontology | ontology identifier from NCBItaxon |
species__ontology_label | ontology_label | ontology label from NCBItaxon |
disease | ontology | ontology identifier from MONDO or PATO (if no disease, use ontology ID "PATO_0000461") |
disease__ontology_label | ontology_label | ontology label from MONDO or PATO (if no disease, use ontology label "normal") |
organ | ontology | ontology identifier from Uberon |
organ__ontology_label | ontology_label | ontology label from Uberon |
library_preparation_protocol | ontology | ontology identifier from Experimental Factor ontology:library preparation |
library_preparation_protocol__ontology_label | ontology_label | ontology label from Experimental Factor ontology:library preparation |
sex | controlled list (enum) | one of ["male", "female", "mixed", "unknown"] |
Required ontology metadata must include corresponding ontology labels with column header <ontology>__ontology_label to enable validation.
SCP Convention- Recommended Metadata
Metadata Name | Type | Description |
---|---|---|
cell_type | ontology | ontology identifier from Cell Ontology |
cell_type__ontology_label | ontology_label | ontology label from Cell Ontology |
Additional optional convention metadata are listed in the SCP Metadata convention with documentation on convention components and additional guidance on usage.
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