Rethink database to support real-time virus analysis

EBOLA Pipeline Notes

Upload documents to VDB

  1. Using current set of Ebola sequences from ebola.nextstrain.org.
  2. Move downloaded sequences to fauna/data
  3. Upload to vdb database
    • python vdb/ebola_upload.py -db vdb -v ebola --source various --locus genome --fname ebola_transfer.fasta

Download documents from VDB

  • python vdb/ebola_download.py -db vdb -v ebola --fstem ebola