Sinkhole susceptibility mapping: A comparison between Bayes-based machine learning algorithms

Land degradation has been recognized as one of the most adverse environmental impacts during the last century. The occurrence of sinkholes is increasing dramatically in many regions worldwide contributing to land degradation. The rise in the sinkhole frequency is largely due to human-induced hydrological alterations that favour dissolution and subsidence processes. Mitigating detrimental impacts associated with sinkholes requires understanding different aspects of this phenomenon such as the controlling factors and the spatial distribution patterns. This research illustrates the development and validation of sinkhole susceptibility models in Hamadan Province, Iran, where a large number of sinkholes are occurring under poorly understood circumstances. Several susceptibility models were developed with a training sample of sinkholes, a number of conditioning factors, and four different statistical approaches: naïve Bayes, Bayes net (BN), logistic regression, and Bayesian logistic regression. Ten conditioning factors were initially considered. Factors with negligible contribution to the quality of predictions, according to the information gain ratio technique, were discarded for the development of the final models. The validation of susceptibility models, performed using different statistical indices and receiver operating characteristic curves, revealed that the BN model has the highest prediction capability in the study area. This model provides reliable predictions on the future distribution of sinkholes, which can be used by watershed and land use managers for designing hazard and land-degradation mitigation plans

Image Processing and Simulation Toolboxes of Microscopy Images of Bacterial Cells

Recent advances in microscopy imaging technology have allowed the characterization of the dynamics of cellular processes at the single-cell and single-molecule level. Particularly in bacterial cell studies, and using the E. coli as a case study, these techniques have been used to detect and track internal cell structures such as the Nucleoid and the Cell Wall and fluorescently tagged molecular aggregates such as FtsZ proteins, Min system proteins, inclusion bodies and all the different types of RNA molecules. These studies have been performed with using multi-modal, multi-process, time-lapse microscopy, producing both morphological and functional images. To facilitate the finding of relationships between cellular processes, from small-scale, such as gene expression, to large-scale, such as cell division, an image processing toolbox was implemented with several automatic and/or manual features such as, cell segmentation and tracking, intra-modal and intra-modal image registration, as well as the detection, counting and characterization of several cellular components. Two segmentation algorithms of cellular component were implemented, the first one based on the Gaussian Distribution and the second based on Thresholding and morphological structuring functions. These algorithms were used to perform the segmentation of Nucleoids and to identify the different stages of FtsZ Ring formation (allied with the use of machine learning algorithms), which allowed to understand how the temperature influences the physical properties of the Nucleoid and correlated those properties with the exclusion of protein aggregates from the center of the cell. Another study used the segmentation algorithms to study how the temperature affects the formation of the FtsZ Ring. The validation of the developed image processing methods and techniques has been based on benchmark databases manually produced and curated by experts. When dealing with thousands of cells and hundreds of images, these manually generated datasets can become the biggest cost in a research project. To expedite these studies in terms of time and lower the cost of the manual labour, an image simulation was implemented to generate realistic artificial images. The proposed image simulation toolbox can generate biologically inspired objects that mimic the spatial and temporal organization of bacterial cells and their processes, such as cell growth and division and cell motility, and cell morphology (shape, size and cluster organization). The image simulation toolbox was shown to be useful in the validation of three cell tracking algorithms: Simple Nearest-Neighbour, Nearest-Neighbour with Morphology and DBSCAN cluster identification algorithm. It was shown that the Simple Nearest-Neighbour still performed with great reliability when simulating objects with small velocities, while the other algorithms performed better for higher velocities and when there were larger clusters present