Java-ML: a machine learning library

Java-ML is a collection of machine learning and data mining algorithms, which aims to be a readily usable and easily extensible API for both software developers and research scientists. The interfaces for each type of algorithm are kept simple and algorithms strictly follow their respective interface. Comparing different classifiers or clustering algorithms is therefore straightforward, and implementing new algorithms is also easy. The implementations of the algorithms are clearly written, properly documented and can thus be used as a reference. The library is written in Java and is available from http://java-ml.sourceforge.net/ under the GNU GPL license

Passive Desertion: An Analysis and Evaluation of Splash Pad Park's Latent Potential

Photojournalism essay on the history, design and failures of Splash Pad Park in Oakland, C

Toward a gold standard for promoter prediction evaluation

Motivation: Promoter prediction is an important task in genome annotation projects, and during the past years many new promoter prediction programs (PPPs) have emerged. However, many of these programs are compared inadequately to other programs. In most cases, only a small portion of the genome is used to evaluate the program, which is not a realistic setting for whole genome annotation projects. In addition, a common evaluation design to properly compare PPPs is still lacking

First records of alien crayfish of the Procambarus acutus species complex in Belgium

We present the first Belgian records of potentially invasive alien crayfish of the Procambarus acutus species complex, including the first confirmed record of P. acutus acutus. The species complex was observed at four different sites in three provinces in the north of the country. Only at one site the presence of a form I male specimen made identification to species level possible, based on gonopod morphology. The other three observations are considered as belonging to the P. acutus species complex. Procambarus acutus acutus is the fifth alien crayfish species known to Belgium. In Europe, it was previously only known as an established alien species from the Netherlands and Great Britain

Discriminative and informative features for biomolecular text mining with ensemble feature selection

Motivation: In the field of biomolecular text mining, black box behavior of machine learning systems currently limits understanding of the true nature of the predictions. However, feature selection (FS) is capable of identifying the most relevant features in any supervised learning setting, providing insight into the specific properties of the classification algorithm. This allows us to build more accurate classifiers while at the same time bridging the gap between the black box behavior and the end-user who has to interpret the results

Pharmacological Threat to Lungs: A Case Series and Literature Review

Drug-induced organ damage stands as a prevalent yet much-neglected issue globally. Keeping in view it\u27s rising frequency, health care providers stand obliged to be well versed with the de-merits of the agents they prescribe. Drug therapies causing damage present with a non-specific clinical presentation, histological findings or radiology, which further elaborates on the necessity of a conscientious diagnosis. Pulmonary architecture ranging from the airways, lung parenchyma, mediastinum, pleura, pulmonary vasculature or the neuromuscular system, all can fall victim to the dreaded outcomes of this menace. In order to establish successful diagnosis, the definite temporal relation between initiation of drug therapy and the development of the respiratory symptoms needs to be drawn. The most common form of pharmacologically arising lung toxicity is drug-induced pneumonitis or interstitial lung disease. Unfortunately, there is no adequate data available to review the extensiveness of this medication-associated risk in Pakistan which further highlights the necessity of carefully monitoring this overlooked yet assessable malady. Furthermore, identification and surveillance of this drug attributed peril shall help diminish burden on healthcare resources of the country. We present three recent cases of different types of drug-induced lung damage under treatment at our University Hospital

GenomeView : a next-generation genome browser

Due to ongoing advances in sequencing technologies, billions of nucleotide sequences are now produced on a daily basis. A major challenge is to visualize these data for further downstream analysis. To this end, we present GenomeView, a stand-alone genome browser specifically designed to visualize and manipulate a multitude of genomics data. GenomeView enables users to dynamically browse high volumes of aligned short-read data, with dynamic navigation and semantic zooming, from the whole genome level to the single nucleotide. At the same time, the tool enables visualization of whole genome alignments of dozens of genomes relative to a reference sequence. GenomeView is unique in its capability to interactively handle huge data sets consisting of tens of aligned genomes, thousands of annotation features and millions of mapped short reads both as viewer and editor. GenomeView is freely available as an open source software package