SDIWG:NCBC Software Classification NCIBI Examples

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NCIBI Software Classification & Metadata Examples


  • NCBC Ontology Classification: Modeling --> Algorithms --> Image Processing --> Registration
  • Description: Edgewarp 3D is a sophisticated workstation package for manipulation of 2D and 3D biomedical images and related data structures by a combination of landmark location, thin-plate spline, and image unwarping and averaging.
  • Data Input: TBD
  • Data Output: TBD
  • Implementation Language: C and C++ code and makes extensive use of SGI's OpenGL graphics interface. Communication with the user is by textual and graphical interfaces managed using TCL/TK.
  • Platforms tested: SGI/IRIX
  • Version, Date, Stage: 3.2.7
  • Authors: Fred Bookstein
  • URL:

MiMi:Michigan Molecular Interactions

  • NCBC Ontology Classification: Biotool --> Data Management -->Information retrieval, traversal and querying
  • Description: MiMI gathers data from well-known protein interaction databases and merges the information. Since these datasets often contain contradictory information, the merge is performed in such a way that all information is retained. A provenance model has been developed that tracks where each piece of data came from, and what processes have been performed upon it. A simple yet powerful user interface aids users in their queries. Thus, MiMI allows scientists to query all data, whether corroborative, or contradictory, and specify which sources to utilize
  • Data Input: MQuery
  • Data Output: XML using MiMI's internal schema, PSI-MI format (version 2.5) and plain text
  • Implementation Language: Timber native XML database
  • Platforms tested: Web and Cytoscape Browsers
  • Authors: Magesh Jayapandian, Adriane Chapman, V. Glenn Tarcea, Cong Yu, Aaron Elkiss, Angela Ianni, Bin Liu, Arnab Nandi, Carlos Santos, Philip Andrews, Brian Athey, David States and H. V. Jagadish
  • URL:
  • Keywords: data integration, protein interactions