Biomedical subjects

Jos B T M Roerdink

Publications and source records attributed to Jos B T M Roerdink.

8 recordsLinked to original sources

PubMed2007

Connected shape-size pattern spectra for rotation and scale-invariant classification of gray-scale images.

In this paper, we describe a multiscale and multishape morphological method for pattern-based analysis and classification of gray-scale images using connected operators. Compared with existing methods, which use structuring elements, our method has three advantages. First, in our method, the time needed for computing pattern spectra does not depend on the number of scales or shapes used, i.e., the computation time is independent of the dimensions of the pattern spectrum. Second, size and strict shape attributes can be computed, which we use for the construction of joint 2D shape-size pattern spectra. Third, our method is significantly less sensitive to noise and is rotation-invariant. Although rotation invariance can also be approximated by methods using structuring elements at different angles, this tends to be computationally intensive. The classification performance of these methods is discussed using four image sets: Brodatz, COIL-20, COIL-100, and diatoms. The new method obtains better or equal classification performance to the best competitor with a 5 to 9-fold speed gain.

Algorithms↗

PubMed2006

Visual search near threshold: Some features are more equal than others.

While searching for objects, we combine information from multiple visual modalities. Classical theories of visual search assume that features are processed independently prior to an integration stage. Based on this, one would predict that features that are equally discriminable in single feature search should remain so in conjunction search. We test this hypothesis by examining whether search accuracy in feature search predicts accuracy in conjunction search. Subjects searched for objects combining color and orientation or size; eye movements were recorded. Prior to the main experiment, we matched feature discriminability, making sure that in feature search, 70% of saccades were likely to go to the correct target stimulus. In contrast to this symmetric single feature discrimination performance, the conjunction search task showed an asymmetry in feature discrimination performance: In conjunction search, a similar percentage of saccades went to the correct color as in feature search but much less often to correct orientation or size. Therefore, accuracy in feature search is a good predictor of accuracy in conjunction search for color but not for size and orientation. We propose two explanations for the presence of such asymmetries in conjunction search: the use of conjunctively tuned channels and differential crowding effects for different features.

Adult↗

PubMed2006

Shape representation and recognition through morphological curvature scale spaces.

A multiscale, morphological method for the purpose of shape-based object recognition is presented. A connected operator similar to the morphological hat-transform is defined, and two scale-space representations are built, using the curvature function as the underlying one-dimensional signal. Each peak and valley of the curvature is extracted and described by its maximum and average heights and by its extent and represents an entry in the top or bottom hat-transform scale spaces. We demonstrate object recognition based on hat-transform scale spaces for three large data sets, a set of diatom contours, the set of silhouettes from the MPEG-7 database and the set of two-dimensional views of three-dimensional objects from the COIL-20 database. Our approach outperforms other methods for which comparative results exist.

Algorithms↗

PubMed2005

Automated correction of spin-history related motion artefacts in fMRI: simulated and phantom data.

This paper concerns the problem of correcting spin-history artefacts in fMRI data. We focus on the influence of through-plane motion on the history of magnetization. A change in object position will disrupt the tissue's steady-state magnetization. The disruption will propagate to the next few acquired volumes until a new steady state is reached. In this paper we present a simulation of spin-history effects, experimental data, and an automatic two-step algorithm for detecting and correcting spin-history artefacts. The algorithm determines the steady-state distribution of all voxels in a given slice and indicates which voxels need a spin-history correction. The spin-history correction is meant to be applied before standard realignment procedures. To obtain experimental data a special phantom and an MRI compatible motion system were designed. The effect of motion on spin-history is presented for data obtained using this phantom inside a 1.5-T MRI scanner. We show that the presented algorithm is capable of detecting the occurrence of a displacement, and it determines which voxels need a spin-history correction. The results of the phantom study show good agreement with the simulations.

Algorithms↗

PubMed2004

Automatic segmentation of diatom images for classification.

A general framework for automatic segmentation of diatom images is presented. This segmentation is a critical first step in contour-based methods for automatic identification of diatoms by computerized image analysis. We review existing results, adapt popular segmentation methods to this difficult problem, and finally develop a method that substantially improves existing results. This method is based on the watershed segmentation from mathematical morphology, and belongs to the class of hybrid segmentation techniques. The novelty of the method is the use of connected operators for the computation and selection of markers, a critical ingredient in the watershed method to avoid over-segmentation. All methods considered were used to extract binary contours from a large database of diatom images, and the quality of the contours was evaluated both visually and based on identification performance.

Algorithms↗

PubMed2004

Denoising functional MR images: a comparison of wavelet denoising and Gaussian smoothing.

We present a general wavelet-based denoising scheme for functional magnetic resonance imaging (fMRI) data and compare it to Gaussian smoothing, the traditional denoising method used in fMRI analysis. One-dimensional WaveLab thresholding routines were adapted to two-dimensional (2-D) images, and applied to 2-D wavelet coefficients. To test the effect of these methods on the signal-to-noise ratio (SNR), we compared the SNR of 2-D fMRI images before and after denoising, using both Gaussian smoothing and wavelet-based methods. We simulated a fMRI series with a time signal in an active spot, and tested the methods on noisy copies of it. The denoising methods were evaluated in two ways: by the average temporal SNR inside the original activated spot, and by the shape of the spot detected by thresholding the temporal SNR maps. Denoising methods that introduce much smoothness are better suited for low SNRs, but for images of reasonable quality they are not preferable, because they introduce heavy deformations. Wavelet-based denoising methods that introduce less smoothing preserve the sharpness of the images and retain the original shapes of active regions. We also performed statistical parametric mapping on the denoised simulated time series, as well as on a real fMRI data set. False discovery rate control was used to correct for multiple comparisons. The results show that the methods that produce smooth images introduce more false positives. The less smoothing wavelet-based methods, although generating more false negatives, produce a smaller total number of errors than Gaussian smoothing or wavelet-based methods with a large smoothing effect.

Algorithms↗

PubMed2004

CPM: a deformable model for shape recovery and segmentation based on charged particles.

A novel, physically motivated deformable model for shape recovery and segmentation is presented. The model, referred to as the charged-particle model (CPM), is inspired by classical electrodynamics and is based on a simulation of charged particles moving in an electrostatic field. The charges are attracted towards the contours of the objects of interest by an electrostatic field, whose sources are computed based on the gradient-magnitude image. The electric field plays the same role as the potential forces in the snake model, while internal interactions are modeled by repulsive Coulomb forces. We demonstrate the flexibility and potential of the model in a wide variety of settings: shape recovery using manual initialization, automatic segmentation, and skeleton computation. We perform a comparative analysis of the proposed model with the active contour model and show that specific problems of the latter are surmounted by our model. The model is easily extendable to 3D and copes well with noisy images.

Algorithms↗

PubMedDate not supplied

Design and evaluation of tiled parallel coordinate visualization of multichannel EEG data.

The field of visualization assists data interpretation in many areas, but does not manage all types of data equally well. This holds, in particular, for time-varying multichannel EEG data. No existing method can successfully visualize simultaneous information from all channels in use at all time steps. To address this problem, a new visualization method is presented based on the parallel coordinate method and making use of a tiled organization. This tiled organization employs a two-dimensional row-column representation, rather than a one-dimensional arrangement in columns as used for classical parallel coordinates. The usefulness of the new method, referred to as tiled parallel coordinates (TPC), is demonstrated by a particular type of EEG data. It can be applied to an arbitrary number of time steps, handling the maximum number of channels currently in use. An extensive user evaluation shows that, for a typical EEG assessment task, data evaluation by the TPC method is faster than by an existing clinical EEG visualization method, without loss of information. The generality of the TPC method makes it widely applicable to other time-varying multivariate data types.

Computer Graphics↗