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1 January 2009 Denoising during optical coherence tomography of the prostate nerves via wavelet shrinkage using dual-tree complex wavelet transform
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The dual-tree complex wavelet transform (CDWT) is a relatively recent enhancement to the discrete wavelet transform (DWT), with important additional properties. It is nearly shift-invariant and directionally selective in two and higher dimensions. In this letter, a locally adaptive denoising algorithm is applied to reduce speckle noise in time-domain optical coherence tomography (OCT) images of the prostate. The algorithm is illustrated using DWT and CDWT. Applying the CDWT provides improved results for speckle noise reduction in OCT images. The cavernous nerve and prostate gland can be separated from discontinuities due to noise, and image quality metrics improvements with a signal-to-noise ratio increase of 14 dB are attained.



Optical coherence tomography (OCT) is a noninvasive optical imaging technique used to perform high-resolution cross-sectional in vivo and in situ imaging of microstructure in biological tissues.1 OCT imaging of the cavernous nerves in the rat and human prostate has recently been demonstrated.2, 3, 4, 5 However, improvements in the quality of the images for identification of the cavernous nerves during prostate cancer surgery would aid preservation of the nerves and improve postoperative sexual function.

Speckle occurs in the OCT image when the particles composed in the underlying tissue structures are smaller than the coherence length of the light source.6 Because the speckle pattern is uncorrelated at different positions, angles, and optical wavelengths, speckle reduction using spatial and frequency compounding techniques cannot remove speckle from images acquired with standard OCT systems. Recently, wavelet techniques have been employed successfully in speckle noise reduction for OCT images.7, 8 Wavelet shrinkage denoising is denoising by nonlinear soft thresholding in the wavelet transform domain. Adler 7 applied the discrete wavelet transform (DWT) which provides the most compact representation; however, it has several limitations. The dual-tree complex wavelet transform (CDWT) overcomes these limitations because it is nearly shift-invariant and is oriented in 2-D.8, 9 The complex wavelet transform was used for wavelet denoising in OCT images.10, 11 Forouzanfar 10 applied the directional Bayesian estimator to remove noise from the wavelet coefficients, and we11 applied a single threshold globally for all relevant parts of the transform in OCT images of experimental systems.

In this study, we have gone one main step further to apply the wavelet shrinkage technique, using CDWT, to an FDA approved clinical endoscopic OCT system. For this purpose, a bivariate shrinkage with local variance estimation algorithm is applied,12 because the performance of the wavelet shrinkage algorithm for OCT image denoising can be improved by considering the statistical dependencies among wavelet coefficients. We compare the results of the DWT and CDWT algorithms for wavelet shrinkage denoising of in vivo OCT images of the rat prostate.


Wavelet shrinkage denoising

Denoising attempts to remove noise and retain signal regardless of the frequency content of the signal. Wavelet shrinkage is denoising by shrinking (nonlinear soft thresholding) in the wavelet transform domain.

The observed image, X , is modeled as an uncorrupted image, S , and multiplicative speckle noise, N . On a logarithmic scale, speckle is converted to additive noise, X=S+N . The wavelet shrinkage denoising algorithm requires the following four-step procedure,13




Wavelet transform

Operator W(.) relates to the wavelet transform, which is the representation of a function by scaled and translated copies of a finite-length or fast-decaying oscillating waveform, which can be used to analyze signals at multiple scales. Wavelet coefficients carry both time and frequency information, as the basis functions vary in position and scale.



The DWT converts a signal to its wavelet representation. In a one-level DWT, a signal c0 is split into an approximation part c1 and a detail part d1 . In a multilevel DWT, each subsequent ci is split into an approximation ci+1 and detail di+1 . For 2-D images, each ci is split into an approximation ci+1 and three detail channels di+11 , di+12 and di+13 for horizontally, vertically, and diagonally oriented details, respectively, Figures 1a and 1b . The inverse DWT reconstructs each ci from ci+1 and di+1 .

Fig. 1

(a) Ordering of the approximation and detail coefficients of a two-level 2-D DWT; (b) a three-level DWT; (c) a three-level CDWT wavelet filter banks.




The CDWT calculates the complex transform of a signal using two separate DWT decompositions [trees a and b, Fig. 1c]. If the filters used in one are specifically designed differently from those in the other, it is possible for one DWT to produce the real coefficients and the other the imaginary coefficients. This redundancy of two provides extra information for analysis but at the expense of extra computational power.

The wavelet transform, W , must be specified by its analysis and synthesis wavelet filter banks. In our case, wavelet coefficients are calculated from the Farras nearly symmetric wavelet.14 The wavelet transform package by Selesnick 15 was used for implementation of the wavelet transform.


Shrinkage denoising

Operator d(.) in Eq. 1 selects a data-adaptive threshold, and D(.,λ) denotes the denoising operator with threshold λ . Bivariate shrinkage with local variance estimation algorithm12 is applied for shrinkage denoising. After estimating the signal components of the noisy coefficients in the wavelet domain, the inverse wavelet transform, W1 , is taken to reconstruct the noise-free image.



Figure 2 shows time-domain OCT images of the cavernous nerves at different orientations (longitudinal, oblique, and cross-sectional) coursing along the surface of the rat prostate. OCT images were taken in vivo using a clinical endoscopic OCT system (Imalux, Cleveland, OH) which is based on a novel, low-maintenance, low-cost, lightweight OCT system using an all single-mode fiber common-path interferometer-based scanning system (Optiphase, Van Nuys, CA). Histologic sections of the cavernous nerves were processed for comparison, Fig. 2. Figure 3 shows the images after denoising using DWT and CDWT. Image-quality metrics were used to assess performance by measuring the average contrast-to-noise ratio, CNRn=10×log(μnμbσn2+σb2) ,6 and the average equivalent number of looks, ENLn=μn2σn2 ,7 over the region of interest which is the location of the cavernous nerve in each image. μn is the mean of the pixel values in the location of the cavernous nerve, σn is the pixel standard deviation, and μb and σb are the pixel mean and standard deviation of a background region of the image, respectively. All calculations are made after logarithmic transformation of the image. In addition, the global SNR is calculated as SNR=10×log[max(Xlin)2σlin2] , where Xlin is the 2-D matrix of pixel values in the OCT image and σlin2 is the noise variance, both on linear intensity scales.6

Fig. 2

OCT and corresponding histologic images of the rat cavernous nerve: (a,b) longitudinal section, (c,d) oblique section, and (e,f) cross section. In each section, the cavernous nerve corresponds to a relatively high signal intensity (shown in red) and lies superficial to the prostate. (color online only.)


Fig. 3

OCT images of the rat cavernous nerve after wavelet shrinkage denoising: (a,c,e) using DWT and (b,d,f) using CDWT. In comparison to DWT, CDWT has the advantages of being nearly shift-invariant and oriented in two dimensions.


The values of CNR, ENL and SNR for nine sample images show significant improvement, Table 1 . A paired t-test was performed for comparison of original and denoised images, with statistical significance given by values of P<0.05 . Comparison of original and CDWT denoised images results in P values for CNR, ENL, and SNR of 0.0003, 0.07, and 0.0001, respectively. The values for CNR and SNR are considered to be statistically significant. Comparison of DWT and CDWT results in P values for CNR, ENL, and SNR of 0.0001, 0.05, and 0.9, respectively. The values for CNR and ENL are considered to be statistically significant.

Table 1

Image quality values.

1Denoised (DWT)4.971425.526.56
Denoised (CDWT)5.631490.927.13
2Denoised (DWT)11.441824.543.47
Denoised (CDWT)12.031932.445.27
3Denoised (DWT)11.041555.746.59
Denoised (CDWT)11.481609.946.06
4Denoised (DWT)13.791796.635.78
Denoised (CDWT)14.081866.335.64
5Denoised (DWT)10.792255.449.84
Denoised (CDWT)11.392442.947.60
6Denoised (DWT)8.401043.746.95
Denoised (CDWT)8.861080.645.21
7Denoised (DWT)13.022672.141.57
Denoised (CDWT)13.562894.843.90
8Denoised (DWT)18.626771.643.47
Denoised (CDWT)19.327580.643.42
9Denoised (DWT)6.231202.032.91
Denoised (CDWT)6.901303.033.59
MeanDenoised (DWT)10.922283.040.79
Denoised (CDWT)11.472466.840.87

DWT lacks the shift-invariance property, and in multiple dimensions it performs poorly for distinguishing orientations, which is important in image processing. In other words, this lack of orientation selectivity greatly complicates modeling and processing of geometric image features like the ridges and edges in which the cavernous nerves belong.16 Therefore, denoising using CDWT, which is more selective with respect to orientation and provides approximate shift-invariance, overcomes this problem and still allows excellent reconstruction of the image. These properties make the CDWT better in denoising than the normal DWT. Comparison of CNR, ENL, and SNR values for DWT and CDWT verifies this; however, we can also visually recognize the advantage of shrinkage denoising using the CDWT.



The wavelet shrinkage denoising technique was used for speckle noise reduction in the OCT images of cavernous nerves in the rat prostate. Two different wavelet transform procedures were used, DWT and CDWT, and their denoising results were compared for identification of the cavernous nerves. The CDWT was used to take advantage of this transform, which is shift-invariant and directionally selective. An SNR increase of 14dB with significant image quality improvements was obtained. This algorithm for wavelet denoising may be a useful technique for clinical OCT applications.


This research was supported in part by the Department of Energy, Grant No. DE-FG02-06CH11460, an Idea Development Award from the Department of Defense Prostate Cancer Research Program, Grant No. PC073709, and a Faculty Research Grant from the University of North Carolina at Charlotte. The authors thank Nancy Tresser of Imalux Corporation (Cleveland, OH) for lending us the Niris OCT system for these studies.



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©(2009) Society of Photo-Optical Instrumentation Engineers (SPIE)
Shahab Chitchian, Michael A. Fiddy, and Nathaniel M. Fried "Denoising during optical coherence tomography of the prostate nerves via wavelet shrinkage using dual-tree complex wavelet transform," Journal of Biomedical Optics 14(1), 014031 (1 January 2009).
Published: 1 January 2009

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