Description
The National Institutes of Health (NIH)intends to negotiate on a sole source basis a contract with Geometric Tools Inc, 6006 Meadow Run Ct., Chapel Hill, NC 27516.1. The Contractor shall have expertise in the area of segmentation, registration and visualization. 2. The Contractor shall furnish object-oriented software in the Java programming language using the JVM 1.4.2 or later that integrates with the MIPAV application and fully implements the tasks required. 3. The software shall be designed and coded in such a manner as to extract the best performance given the constraints of the programming language and hardware. 4. The Contractor shall integrate all tasks directly into the MIPAV application. 5. The Contractor shall add the ability to cut the surface mesh along the drawn geodesic using the active geodesic tool. 6. The Contractor shall make geodesic update path display in real-time (like livewire in 2D imaging tool) from last clicked point to cursor position. 7. The Contractor shall cut the surface mesh along the geodesic path and output them to the GUI (list of surface files) as new surfaces. 8. The Contractor shall measure Euclidian distance from surfaces meshes (not geodesic distances – that’s already completed). Add GUI buttons to indicate geodesic or Euclidian distance. Allow multiple point pairs Euclidian distances and display the distance information in the GUI. 9. The Contractor shall provide a volume renderer which shall offer the following: a. Ability to adjust window and level (contrast and brightness) with the cursor in any of the bottom three image planes of the 3D renderer (use right mouse button). Similar to the method in 2D image display (right mouse button up and down controls level and left to right controls _window_ width). The LUT transfer function display should update simultaneously. b. Improve renderering of Raycast – seems to be subsampled. Give the user ability to adjust rendering quality via slider. Quality is controlled by the size of the renderer target image. c. Ability to select surface materials options. Work with surface XSD (XML) and add ability to read and write surfaces in the XML format. Read and write material palettes. Material is shown as shaded spheres. 10. The Contractor shall provide an automatic 2D mosaic image generation (requires registration). Using the 2D affine registration available in MIPAV (OAR 2D). Two or more images are stitched together along edges. These images may come from a microscope where multiple overlapping images are acquired in the 2D plane. Add GUI to allow user to initiate initial image layout and then call registration. Output stitched together 2D image in a frame. For color images and single channel images. 11. The Contractor shall perform the following tasks: A. Port all ITK diffusion levelset C++ classes to Java and integrate into MIPAV. Build dialog that will allow the user to choose diffusion method and parameters. In the end it should produce a mask image and/or VOI. Result algorithms should be scriptable like other MIPAV functions. B. Refactor ViewJComponentEditImage to better share code of transfer functions from the volume renderers. C. Cell tracking. An implementation of "Active Contours for Cell Tracking" by Nilanjan Ray and Scott T. Acton. D. Iterative Closest Point to determine correspondence between two sets of points. E. Design and implementation of coordinate system classes with replacement of code in a selected number of subsystems. F. Implement Blind deconvolution using techniques described in: Holmes, T.J., Maximum Likelihood Image Restoration Adapted for Noncoherent Optical Imaging, JOSA-A, 5(5): 666-673, 1988. Holmes, T., Bhattacharyya, S., Cooper, J., Hanzel, D., Krishnamurthi, V., Lin, W., Roysam, B., Szarowski, D., Turner, J., Light Microscopic Images Reconstructed by Maximum Likelihood Deconvolution, Ch. 24, Handbook of Biological Confocal Microscopy, J. Pawley, Plenum, 1995. Holmes, T., Liu, Y., Image Restoration for 2D and 3D Fluorescence Microscopy, Visualization in Biomedical Microscopies, A. Kriete, VCH, 1992. Holmes, T., Blind Deconvolution of Quantum-Limited Noncoherent Imagery, JOSA-A, 9: 1052 - 1061, 1992. G. Implement the algorithm in the paper Stereo pair images. Implement an algorithm to generate a stereo pair of images for viewing without the aid of special glasses. 12. The Contractor shall have a PhD in Applied mathematics and Computer Science. 13. The Contractor shall have expertise in graphics display and medical imaging. The Northern American Industry Classification System Code is 334611. It is the Government’s belief that these requirements may only be met by Geometric Tools, Inc. This is not a formal solicitation, however, concerns that respond to this notice must furnish concise responses directed specifically to the requirements mentioned above. Sources demonstrating the capability to accomplish the above shall supply pertinent information in sufficient detail to demonstrate their ability to perform. Information furnished shall include enough material to perform a proper evaluation. Respondents will not be notified of the evaluation results.