Stage cBioPortal - Githubissues

GW-HIVE / biomuta-old

Documentation: https://biomuta.readthedocs.io/en/latest/

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Stage cBioPortal #9

Closed mariacuria closed 1 week ago

mariacuria commented 1 week ago

cBioPortal (or other sources e.g. Ensembl, RefSeq) downloads will be on the hivelab server: /data/shared/biomuta/downloads/cbioportal
scripts will be here: /data/shared/biomuta/pipelines
datasets generated by my scripts will be here: /data/shared/biomuta/generated_datasets

Tthis directory: /data/shared/pipelines currently holds a branch of the biomuta-old (the one this ticket is in). I will update it and add to its README.md

mariacuria commented 1 week ago

Structure the downloads as: downloads/cbioportal/2024_10_20 (version as of rn). Next month create a new dir 2024_11. Each month we will have a new dir for updates.

For generated datasets, create hierarchical: generated/datasets. There will also be generated/misc (config, mapping files).