Group testing problems in experimental molecular biology

In group testing, the task is to determine the distinguished members of a set of objects L by asking subset queries of the form ``does the subset Q of L contain a distinguished object?'' The primary biological application of group testing is for screening libraries of clones with hybridization probes. This is a crucial step in constructing physical maps and for finding genes. Group testing has also been considered for sequencing by hybridization. Another important application includes screening libraries of reagents for useful chemically active zones. This preliminary report discusses some of the constrained group testing problems which arise in biology.Comment: 7 page

Superselectors: Efficient Constructions and Applications

We introduce a new combinatorial structure: the superselector. We show that superselectors subsume several important combinatorial structures used in the past few years to solve problems in group testing, compressed sensing, multi-channel conflict resolution and data security. We prove close upper and lower bounds on the size of superselectors and we provide efficient algorithms for their constructions. Albeit our bounds are very general, when they are instantiated on the combinatorial structures that are particular cases of superselectors (e.g., (p,k,n)-selectors, (d,\ell)-list-disjunct matrices, MUT_k(r)-families, FUT(k, a)-families, etc.) they match the best known bounds in terms of size of the structures (the relevant parameter in the applications). For appropriate values of parameters, our results also provide the first efficient deterministic algorithms for the construction of such structures

User-profile-based analytics for detecting cloud security breaches

While the growth of cloud-based technologies has benefited the society tremendously, it has also increased the surface area for cyber attacks. Given that cloud services are prevalent today, it is critical to devise systems that detect intrusions. One form of security breach in the cloud is when cyber-criminals compromise Virtual Machines (VMs) of unwitting users and, then, utilize user resources to run time-consuming, malicious, or illegal applications for their own benefit. This work proposes a method to detect unusual resource usage trends and alert the user and the administrator in real time. We experiment with three categories of methods: simple statistical techniques, unsupervised classification, and regression. So far, our approach successfully detects anomalous resource usage when experimenting with typical trends synthesized from published real-world web server logs and cluster traces. We observe the best results with unsupervised classification, which gives an average F1-score of 0.83 for web server logs and 0.95 for the cluster traces

Reservoir of Diverse Adaptive Learners and Stacking Fast Hoeffding Drift Detection Methods for Evolving Data Streams

The last decade has seen a surge of interest in adaptive learning algorithms for data stream classification, with applications ranging from predicting ozone level peaks, learning stock market indicators, to detecting computer security violations. In addition, a number of methods have been developed to detect concept drifts in these streams. Consider a scenario where we have a number of classifiers with diverse learning styles and different drift detectors. Intuitively, the current 'best' (classifier, detector) pair is application dependent and may change as a result of the stream evolution. Our research builds on this observation. We introduce the \mbox{Tornado} framework that implements a reservoir of diverse classifiers, together with a variety of drift detection algorithms. In our framework, all (classifier, detector) pairs proceed, in parallel, to construct models against the evolving data streams. At any point in time, we select the pair which currently yields the best performance. We further incorporate two novel stacking-based drift detection methods, namely the \mbox{FHDDMS} and \mbox{FHDDMS}_{add} approaches. The experimental evaluation confirms that the current 'best' (classifier, detector) pair is not only heavily dependent on the characteristics of the stream, but also that this selection evolves as the stream flows. Further, our \mbox{FHDDMS} variants detect concept drifts accurately in a timely fashion while outperforming the state-of-the-art.Comment: 42 pages, and 14 figure

Scripted GUI Testing of Android Apps: A Study on Diffusion, Evolution and Fragility

Background. Evidence suggests that mobile applications are not thoroughly tested as their desktop counterparts. In particular GUI testing is generally limited. Like web-based applications, mobile apps suffer from GUI test fragility, i.e. GUI test classes failing due to minor modifications in the GUI, without the application functionalities being altered. Aims. The objective of our study is to examine the diffusion of GUI testing on Android, and the amount of changes required to keep test classes up to date, and in particular the changes due to GUI test fragility. We define metrics to characterize the modifications and evolution of test classes and test methods, and proxies to estimate fragility-induced changes. Method. To perform our experiments, we selected six widely used open-source tools for scripted GUI testing of mobile applications previously described in the literature. We have mined the repositories on GitHub that used those tools, and computed our set of metrics. Results. We found that none of the considered GUI testing frameworks achieved a major diffusion among the open-source Android projects available on GitHub. For projects with GUI tests, we found that test suites have to be modified often, specifically 5\%-10\% of developers' modified LOCs belong to tests, and that a relevant portion (60\% on average) of such modifications are induced by fragility. Conclusions. Fragility of GUI test classes constitute a relevant concern, possibly being an obstacle for developers to adopt automated scripted GUI tests. This first evaluation and measure of fragility of Android scripted GUI testing can constitute a benchmark for developers, and the basis for the definition of a taxonomy of fragility causes, and actionable guidelines to mitigate the issue.Comment: PROMISE'17 Conference, Best Paper Awar

Rotation-invariant features for multi-oriented text detection in natural images.

Texts in natural scenes carry rich semantic information, which can be used to assist a wide range of applications, such as object recognition, image/video retrieval, mapping/navigation, and human computer interaction. However, most existing systems are designed to detect and recognize horizontal (or near-horizontal) texts. Due to the increasing popularity of mobile-computing devices and applications, detecting texts of varying orientations from natural images under less controlled conditions has become an important but challenging task. In this paper, we propose a new algorithm to detect texts of varying orientations. Our algorithm is based on a two-level classification scheme and two sets of features specially designed for capturing the intrinsic characteristics of texts. To better evaluate the proposed method and compare it with the competing algorithms, we generate a comprehensive dataset with various types of texts in diverse real-world scenes. We also propose a new evaluation protocol, which is more suitable for benchmarking algorithms for detecting texts in varying orientations. Experiments on benchmark datasets demonstrate that our system compares favorably with the state-of-the-art algorithms when handling horizontal texts and achieves significantly enhanced performance on variant texts in complex natural scenes

Assessing rotation-invariant feature classification for automated wildebeest population counts

Accurate and on-demand animal population counts are the holy grail for wildlife conservation organizations throughout the world because they enable fast and responsive adaptive management policies. While the collection of image data from camera traps, satellites, and manned or unmanned aircraft has advanced significantly, the detection and identification of animals within images remains a major bottleneck since counting is primarily conducted by dedicated enumerators or citizen scientists. Recent developments in the field of computer vision suggest a potential resolution to this issue through the use of rotation-invariant object descriptors combined with machine learning algorithms. Here we implement an algorithm to detect and count wildebeest from aerial images collected in the Serengeti National Park in 2009 as part of the biennial wildebeest count. We find that the per image error rates are greater than, but comparable to, two separate human counts. For the total count, the algorithm is more accurate than both manual counts, suggesting that human counters have a tendency to systematically over or under count images. While the accuracy of the algorithm is not yet at an acceptable level for fully automatic counts, our results show this method is a promising avenue for further research and we highlight specific areas where future research should focus in order to develop fast and accurate enumeration of aerial count data. If combined with a bespoke image collection protocol, this approach may yield a fully automated wildebeest count in the near future