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Hi Claudio,
I just found that information is missing, so the samples are identified as RNA-seq experiments.
I am unsure what that is, but I will use this Issue to query additional information.
Thank you for the fantastic work on the package!
We should add some documentation on uploading the files generated by the cbiopourer
package to a self-hosted cBioPortal instance.
There is plenty of documentation on the cBioPortal Documentation website
For a docker-based instance, it is as simple as:
STUDY_NAME="study_x"
INSTANCE_HOSTNAME="localhost"
INSTANCE_PORT="8080"
docker compose exec cbioportal metaImport.py \
-u "http://${INSTANCE_HOSTNAME}:${INSTANCE_PORT}" \
-s study/"${STUDY_NAME}"/ -o;
We could even provide a wrapper around this.
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