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Cell counting is a ubiquitous, yet tedious task that would greatly benefit from automation. From basic biological questions to clinical trials, cell counts provide key quantitative feedback that drive research. Unfortunately, cell counting…

In this dissertation, we investigated and enhanced Deep Learning (DL) techniques for counting objects, like pedestrians, cells or vehicles, in still images or video frames. In particular, we tackled the challenge related to the lack of data…

Counting cells in fluorescent microscopy is a tedious, time-consuming task that researchers have to accomplish to assess the effects of different experimental conditions on biological structures of interest. Although such objects are…

With the growth of artificial intelligence (AI), there has been an increase in the adoption of computer vision and deep learning (DL) techniques for the evaluation of microscopy images and movies. This adoption has not only addressed…

The cost of some drugs and medical treatments has risen in recent years that many patients are having to go without. A classification project could make researchers more efficient. One of the more surprising reasons behind the cost is how…

The accurate tracking of live cells using video microscopy recordings remains a challenging task for popular state-of-the-art image processing based object tracking methods. In recent years, several existing and new applications have…

The biomedical imaging world is notorious for working with small amounts of data, frustrating state-of-the-art efforts in the computer vision and deep learning worlds. With large datasets, it is easier to make progress we have seen from the…

An automatic approach to counting any kind of cells could alleviate work of the experts and boost the research in fields such as regenerative medicine. In this paper, a method for microscopy cell counting using multiple frames (hence…

Automated in-vitro cell detection and counting have been a key theme for artificial and intelligent biological analysis such as biopsy, drug analysis and decease diagnosis. Along with the rapid development of microfluidics and lab-on-chip…

Recent advances in deep learning techniques have achieved remarkable performance in several computer vision problems. A notably intuitive technique called Curriculum Learning (CL) has been introduced recently for training deep learning…

Single cell segmentation is critical and challenging in live cell imaging data analysis. Traditional image processing methods and tools require time-consuming and labor-intensive efforts of manually fine-tuning parameters. Slight variations…

In this paper we propose a novel method which leverages the uncertainty measures provided by Bayesian deep networks through curriculum learning so that the uncertainty estimates are fed back to the system to resample the training data more…

Many neuroscientific applications require robust and accurate localization of neurons. It is still an unsolved problem because of the enormous variation in intensity, texture, spatial overlap, morphology and background artifacts. In…

Deep learning has excelled in image recognition tasks through neural networks inspired by the human brain. However, the necessity for large models to improve prediction accuracy introduces significant computational demands and extended…

In many real-life tasks of application of supervised learning approaches, all the training data are not available at the same time. The examples are lifelong image classification or recognition of environmental objects during interaction of…

Image classification systems recently made a giant leap with the advancement of deep neural networks. However, these systems require an excessive amount of labeled data to be adequately trained. Gathering a correctly annotated dataset is…

Deep neural networks are increasingly being used for the analysis of medical images. However, most works neglect the uncertainty in the model's prediction. We propose an uncertainty-aware deep kernel learning model which permits the…

Automatic cell tracking in dense environments is plagued by inaccurate correspondences and misidentification of parent-offspring relationships. In this paper, we introduce a novel cell tracking algorithm named DenseTrack, which integrates…

Deep neural networks have proven to be very effective for computer vision tasks, such as image classification, object detection, and semantic segmentation -- these are primarily applied to color imagery and video. In recent years, there has…

We present a new annotated microscopic cellular image dataset to improve the effectiveness of machine learning methods for cellular image analysis. Cell counting is an important step in cell analysis. Typically, domain experts manually…