text: Phenotyping is the process of measuring an organism's observable traits. Manual phenotyping of crops is a labor-intensive, time-consuming, costly, and error prone process. Accurate, automated, high-throughput phenotyping can relieve a huge burden in the crop breeding pipeline. In this paper, we propose a scalable, high-throughput approach to automatically count and segment panicles (heads), a key phenotype, from aerial sorghum crop imagery. Our counting approach uses the image density map obtained from dot or region annotation as the target with a novel deep convolutional neural network architecture. We also propose a novel instance segmentation algorithm using the estimated density map, to identify the individual panicles in the presence of occlusion. With real Sorghum aerial images, we obtain a mean absolute error (MAE) of 1.06 for counting which is better than using well-known crowd counting approaches such as CCNN, MCNN and CSRNet models. The instance segmentation model also produces respectable results which will be ultimately useful in reducing the manual annotation workload for future data.
  @cite_35: The ability to accurately quantitate specific populations of cells is important for precision diagnostics in laboratory medicine. For example, the quantization of positive tumor cells can be used clinically to determine the need for chemotherapy in a cancer patient. In this paper, we describe a supervised learning framework with Convolutional Neural Network (CNN) and cast the cell counting task as a regression problem, where the global cell count is taken as the annotation to supervise training, instead of following the classification or detection framework. To further decrease the prediction error of counting, we tune several cutting-edge CNN architectures (e.g. Deep Residual Network) into the regression model. As the final output, not only the cell count is estimated for an image, but also its spatial density map is provided. The proposed method is evaluated with three state-of-the-art approaches on three cell image datasets and obtain superior performance.
  @cite_14: 
  @cite_33: We address the problem of counting cells in time-lapse microscopy images of developing human embryos. Cell counting is considered as an important step in analyzing biological phenomenon such as embryo viability. Traditional approaches to counting cells rely on hand crafted features and cannot fully take advantage of the growth in data set sizes. In this paper, we propose a framework to automatically count the number of cells in developing human embryos. The framework employs a deep convolutional neural network model trained to count cells from raw microscopy images. We demonstrate the effectiveness of our approach on a data set of 265 human embryos. The results show that the proposed framework provides robust estimates of the number of cells in a developing embryo up to the 5-cell stage (i.e., 48 h post fertilization).
  @cite_36: 
  @cite_53: 
  @cite_42: 
  @cite_3: 
  @cite_50: Classifying and counting vehicles in road traffic has numerous applications in the transportation engineering domain. However, the wide variety of vehicles (two-wheelers, three-wheelers, cars, buses, trucks etc.) plying on roads of developing regions without any lane discipline, makes vehicle classification and counting a hard problem to automate. In this paper, we use state of the art Convolutional Neural Network (CNN) based object detection models and train them for multiple vehicle classes using data from Delhi roads. We get upto 75 MAP on an 80-20 train-test split using 5562 video frames from four different locations. As robust network connectivity is scarce in developing regions for continuous video transmissions from the road to cloud servers, we also evaluate the latency, energy and hardware cost of embedded implementations of our CNN model based inferences.
  @cite_23: 
  @cite_16: Abstract Estimating count and density maps from crowd images has a wide range of applications such as video surveillance, traffic monitoring, public safety and urban planning. In addition, techniques developed for crowd counting can be applied to related tasks in other fields of study such as cell microscopy, vehicle counting and environmental survey. The task of crowd counting and density map estimation is riddled with many challenges such as occlusions, non-uniform density, intra-scene and inter-scene variations in scale and perspective. Nevertheless, over the last few years, crowd count analysis has evolved from earlier methods that are often limited to small variations in crowd density and scales to the current state-of-the-art methods that have developed the ability to perform successfully on a wide range of scenarios. The success of crowd counting methods in the recent years can be largely attributed to deep learning and publications of challenging datasets. In this paper, we provide a comprehensive survey of recent Convolutional Neural Network (CNN) based approaches that have demonstrated significant improvements over earlier methods that rely largely on hand-crafted representations. First, we briefly review the pioneering methods that use hand-crafted representations and then we delve in detail into the deep learning-based approaches and recently published datasets. Furthermore, we discuss the merits and drawbacks of existing CNN-based approaches and identify promising avenues of research in this rapidly evolving field.
  @cite_25: This paper concerns automated cell counting and detection in microscopy images. The approach we take is to use convolutional neural networks (CNNs) to regress a cell spatial density map across the ...
  @cite_20: 
summary: Crowd and Traffic Monitoring : Counting people in a crowd @cite_16 @cite_20 @cite_3 @cite_53 is perhaps the focus area of new counting approaches in many mainstream computer vision venues, and hence expanded in Section . There is also a good amount of literature on methods used for counting vehicles @cite_50 @cite_36 @cite_14 @cite_42 . Medical imaging : For general cell counting @cite_35 , cell counting and detection using fully convolutional regression networks @cite_25 , counting cells for images showing a developing human embryo @cite_33 , and counting bacteria colonies @cite_23 .