A schematic view of the CoBaltDB workflow. CoBaltDB integrates the results of 43 localization predictors for 784 complete bacterial and archaeal proteomes. Each complete NCBI prokaryotic genome implemented in CoBaltDB was classified as: archaea, or monoderm or diderm bacteria. 101 protein subcellular location predictors were evaluated and few were rejected. Selected tools were classified as: feature localization tools (Specialized), localization meta-tools (Global) or databases. The data recovery process was performed manually or via a Web automat using a python automatic submission workflow for both stand-alone and web-based tools. Databases were downloaded. For each protein, ouptuts collected were parsed and selected items were stored in particular CoBaltDB formatted files (.cbt). The parsing pipeline creates one ".cbt" file per replicon to compose the final CoBaltDB repository. The client CoBaltDB Graphical User Interface communicates with the server-side repository via web services to provide graphical and tabular representations of the results.