OpenCCDB version 1.2 release notes (11/07/2011)

 

What's New in OpenCCDB 1.2
  • Improved database schema (v2.2.2) with the GIS image annotation support

  • Improved WIB annotation module and more supported image formats

  • External  image annotation service

  • Bug fixes
Detailed component list
  • Improved CCDB schema version 2.2.2
  • External image annotation service NEW
    • A SOAP webservice to manage the spatial and ontology-based image annotation.
  • Image utilities
    • Downsampler – Efficiently convert and downsample the high resolution images
    • WIB creator -  Create the WIB tiled images
    • Vcutter – Crop and downsample the IMOD volume data
    • Cutter – Slice the volume data as a 2D image
  • NCMIR data workflow
    • Browse, visualize , validate and archive data
    • A bridge between the data grid and the users
    • Utilize the super-computer cluster like triton for the intensive calculation
  • WIB
    • Supported formats
      • OMERO raw data format (IRODS) New
      • IMARIS .ims format (IRODS) New
      • The tiled jpeg and png images(HTTP)
      • The tiled jpeg images (HTTP)
      • PPM (SRB or IRODS)
      • TIFF (SRB or IRODS)

      •  TIFF folder (SRB or IRODS)

      • IMG (SRB or IRODS)

      • DM3 (SRB or IRODS)

      • PNZ (HTTP)

      • IMOD - .st, .rec, .mrc (SRB or IRODS)

      • Analyze 7.5 (SRB or IRODS)

    • Features

      • Ontology annotation

      •  Zoom or pan high resolution images

      •  Enable or disable color channels

      •  Adjust the brightness

      •  Adjust the contrast (auto-adjusted)

      •  Sharing the WIB view with the collaborators

      •  Overlay with the Allan brain atlas

  • Cytoseg

    • Support format(s)
      • TIFF images 
    • Generate the automatic segmentation of 3D biological datasets, with emphasis on 3D electron microscopy
  • Known bugs

 

Contact:

webmaster@ccdb.ucsd.edu

 

Terms and Conditions:

BSD license

Copyright (c) 2010, CCDB
All rights reserved.

Redistribution and use in source and binary forms are permitted provided that the above copyright notice and this paragraph are duplicated in all such forms and that any documentation, advertising materials, and other materials related to such distribution and use acknowledge that the software was developed by the CCDB. The name of the University may not be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED ``AS IS'' AND WITHOUT ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.

 

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