Patent Application
20080112606
This invention relates to the detection and segmentation of moving cells from temporal image sequence.
Moving cellular or subcellular object detection from temporal image sequence is the basic step for kinetic analysis of live cell time-lapse movies acquiring from video microscopes. It involves the accurate segmentation of moving cells from stationary background as well as the separation of cells when they touch each other.
Recognition of moving objects is one of the most important problems in computer vision. This problem has many applications in diverse disciplines including remote sensing, surveillance, medical diagnosis and treatment, civil infrastructure, and underwater sensing. Commonly used techniques for moving object detection in video images are dynamic models, temporal differencing and optical flow, background subtraction, etc. (J. Rittscher, J. Kato, S. Joga, and A. Blake “A probabilistic background model for tracking”. ECCV, pp. 336-350, 2000; D. Magee, ‘Tracking multiple vehicles using foreground, background and motion models’, in Proc. ECCV Workshop on Statistical Methods in Video Processing, (2002); Elgammal, R. Duraiswami, D. Harwood, and L. S. Davis, “Background and foreground modeling using nonparametric kernel density estimation for visual surveillance,” Proceedings of IEEE, vol. 90, pp. 1151-1163, 2002; Image change detection algorithms: a systematic survey Radke, R. J. Andra, S. Al-Kofahi, O. Roysam, B. Dept. of Electr., Rensselaer Polytech. Inst., Troy, N.Y., USA; C. Ridder, O. Munkelt, and H. Kirchner. Adaptive background estimation and foreground detection using kalman filtering. In Int. Conf. on Recent Advances in Mechatronics, pages 193-199, 1995.)
The prior art dynamic modeling method is only suitable for man-made objects or structurally predictable entities such as cars, airplanes or human (with head, arms, body, legs). They are not suitable for natural objects such as cells or other biological entities. The prior art temporal differencing and optical flow methods are very sensitive to noise due to its inherent high pass filtering characteristics and noise tens to be in the high frequency spectrum.
Background subtraction is a commonly used technique for moving object segmentation in static scenes. It attempts to detect moving regions by subtracting the current image pixel-by-pixel from a reference background image that is created by averaging images over time in an initialization period. The pixels where the difference is above a threshold are classified as foreground. The reference background is updated with new images over time to adapt to dynamic scene changes. However, the simple background subtraction or inter-frame differencing schemes are known to perform poorly. This is due to the inherent variations of the background image that cannot be easily compensated by a simple intensity background image.
Although background subtraction techniques could extract most of the relevant pixels of moving regions even when they stop, they are usually sensitive to dynamic changes such as sudden illumination changes. More advanced methods that make use of the temporal statistical characteristics of individual pixels have been developed in the prior art to overcome the shortcomings of basic background subtraction methods. These statistical methods are mainly inspired by the background subtraction methods in terms of keeping and dynamically updating statistics of the pixels that belong to the background image process. Moving objects are identified by comparing each pixel's statistics with that of the background model. This approach reduces false object detection. Yet, it suffers from missed detection of moving objects or regions of moving objects having low contrast with respect to the background intensity.
The moving cell detection method of this invention seeks to significantly improve the moving object detection sensitivity and specificity using spatial-temporal regulation. It uses dynamic spatial-temporal reference including not only reference background image but also reference variation images for the moving object detection. It further includes object detection refinement using previous frame object tracking results and the adaptive integration of the previous results. It also includes conflict resolution to resolve cells that are touching or stacking (overlapping) over time.
The objectives of the moving cell detection method of this invention are:
A computerized robust cell kinetic recognition method for moving cell detection from temporal image sequence receives an image sequence containing a current image. A dynamic spatial-temporal reference generation is performed to generate dynamic reference image output. A reference based object segmentation is performed to generate initial object segmentation output. An object matching and detection refinement is performed to generate kinetic recognition results output. The dynamic spatial-temporal reference generation step performs frame look ahead and the reference images contain a reference intensity image and at least one reference variation image.
The preferred embodiment and other aspects of the invention will become apparent from the following detailed description of the invention when read in conjunction with the accompanying drawings, which are provided for the purpose of describing embodiments of the invention and not for limiting same, in which:
This invention discloses a computerized robust cell kinetic recognition module that can accurately recognize and track a cell of the current frame (t) using both the current frame image and at least one previous frame (t−1), . . . , (t−k) recognition results. A key innovation of this invention is the creation of dynamic spatial-temporal referencing method implemented in a computer. The dynamic spatial-temporal referencing method generates reference images including not only reference background image but also reference variations images for the moving object detection. The moving object detection is then based on the reference subtraction approach. That is, a moving object is detected by subtracting the current frame from the reference images.
The method further includes object detection refinement using object tracking and adaptive integration as well as conflict resolution to resolve cells that are touching or stacking (overlapping) over time. A frame look ahead strategy is used for reference images creation. Therefore, we could detect the moving objects from the first frame of the sequence even though there are no previous frames available. This is accomplished by the subtraction of the first frame and the initial reference images. Wherein the initial reference images for the first frame are generated using many future frames through the frame look-ahead method.
The detection and segmentation of cells dealing with a largely static background, which is not completely visible all the time due to the presence of the cells blocking the background region. However, live cells move out of their current locations over time and the blocked background becomes visible when the cells move. Therefore, a reference background image could be generated by extracting them from a long enough series of image frames. The reference background can be used for cell detection by the background subtraction methods. Although background subtraction methods could extract the most of the relevant pixels of moving regions even when they stop, they are sensitive to dynamic variations such as sudden illumination changes. More advanced methods that make use of the temporal statistical characteristics of individual pixels can be used to reduce false object detection. Yet, it suffers from missed detection of regions of moving cells having low contrast with respect to the background intensity, which occur very often in label-free imaging protocol such as phase contrast images. Our dynamic spatial-temporal reference generation method generates not only a background intensity reference image but also at least one background spatial-temporal variation images capturing the expected background image variation at specific spatial and temporal resolution. The processing flow for the dynamic spatial-temporal reference generation module is shown in
The reference based object segmentation of the current invention achieves highly sensitive cell detection by subtracting the input image from the dynamic reference images to create a plurality of difference images. Highly specific performance is achieved by integrating the multiple channels of difference images. The processing flow for the reference based object segmentation is shown in
As shown in
The initial object segmentation result does not take advantage of the cell tracking results. Therefore, it cannot resolve overlapping cells or cannot group together portion of a cell that is disjointed from the cell body either due to the imaging condition (such as partially out of focus) or physical conditions. The object matching and detection refinement stage uses the results from the previous frames to refine the initial object segmentation results. The processing flow for the object matching and detection refinement method of the invention is shown in
The matching and shift estimation 412 step also performs new cell detection. If no reasonable match can be found, a new cell is detected. Otherwise, the newly matched object is added to the track of its matched object in the previous frame. In this case, the displacement between the matches is the estimated shift 404. The updated tracks or new cell detection 402 is stored back to the previous frame results storage 118 after one frame delay 120. Also, the goodness of match for the current frame is stored in the updated track.
The previous frame results 400 corresponding to the best match are aligned with the current frame after shifting by the estimated shift 404 amount. The aligned multiple frame results are combined by an aligned combination 416 stage to generate combined previous results 408. The combination can be done by a simple set union operation or by a weighed combination using the weights from the previous frame results 400 of the same track according to their goodness of matches.
To facilitate the integration and refinement, a sub-region cutting 414 is performed on the initial object segmentation 314. In one embodiment of the invention, the sub-region cutting is performed using watershed method on the distance transformed object regions. Another embodiment of the invention uses watershed method on the smoothed grayscale image of the object region. Those skilled in the art should recognize that other methods such as contour based method can be used for sub-region cutting. The sub-region cutting 414 generates cut object components 406. The cut object components 406 are integrated by an integration 418 step with the combined previous results 408 to generate an integrated mask 410.
In one embodiment of the invention, the integration 418 includes a cut object component 406 in the integrated mask 410 if the object component is close to the corresponding masks of the combined previous results 408. The closeness can be determined by touching. In another embodiment of the invention, the closeness is determined by a percentage of the object component 406 overlapping with the combined previous results 408. The integration 418 module includes a conflict resolution step. If a cut object component 406 has intersection with multiple objects in the previous frame. The previous frame object whose combined previous results have the largest intersection with the cut object component will be the matched object for the cut object component 406 to be included.
An integrated mask 410 is subject to final refinement 420 step. This results in the final object segmentation 422. In one embodiment of the invention, structure guided processing (Shih-Jong J. Lee, “Structure-guided image processing and image feature enhancement”, U.S. Pat. No. 6,463,175, Oct. 8, 2002; Shih-Jong J. Lee, Seho Oh, Chi-Chou Huang, “Structure-guided automatic learning for image feature enhancement”, U.S. Pat. No. 6,507,675, Jan. 14, 2003; Shih-Jong James Lee, Seho Oh, “Structure-guided Image Inspection”, U.S. Pat. No. 7,076,093, Jul. 11, 2006) is used for the final refinement 420. The final object segmentation 422 along with the updated tracks or new cell detection 402 data are the kinetic recognition results 108.
The invention has been described herein in considerable detail in order to comply with the Patent Statutes and to provide those skilled in the art with the information needed to apply the novel principles and to construct and use such specialized components as are required. However, it is to be understood that the inventions can be carried out by specifically different equipment and devices, and that various modifications, both as to the equipment details and operating procedures, can be accomplished without departing from the scope of the invention itself.
