CCLE, PCAWG, and TCGA we can use the consortium-provided metadata and link it to samples.
For each sample it stores a reference to a metadata file - we already sort of have this, but the problem is that for most samples this is empty.
Users provide a self-created table with first column as sample name, other columns are all the metadata fields they want. Create functionality to inject this into the project database.
Is there a standard format we can leverage? Do we have required columns such as tissue of origin, cancer type, etc. ? Jens will check out how DepMap does this, and also how ICGC ARGO does it.
CCLE, PCAWG, and TCGA we can use the consortium-provided metadata and link it to samples.
For each sample it stores a reference to a metadata file - we already sort of have this, but the problem is that for most samples this is empty.
Users provide a self-created table with first column as sample name, other columns are all the metadata fields they want. Create functionality to inject this into the project database.
Is there a standard format we can leverage? Do we have required columns such as tissue of origin, cancer type, etc. ? Jens will check out how DepMap does this, and also how ICGC ARGO does it.