In this paper, we present a method for recognizing human activities using information sensed by an RGB-D camera, namely the Microsoft Kinect. Our approach is based on the estimation of some relevant joints of the human body by means of the Kinect; three different machine learning techniques, i.e., K-means clustering, support vector machines, and hidden Markov models, are combined to detect the postures involved while performing an activity, to classify them, and to model each activity as a spatiotemporal evolution of known postures. Experiments were performed on Kinect Activity Recognition Dataset, a new dataset, and on CAD-60, a public dataset. Experimental results show that our solution outperforms four relevant works based on RGB-D image fusion, hierarchical Maximum Entropy Markov Model, Markov Random Fields, and Eigenjoints, respectively. The performance we achieved, i.e., precision/recall of 77.3% and 76.7%, and the ability to recognize the activities in real time show promise for applied use

BackgroundAn open challenge in translational bioinformatics is the analysis of sequenced metagenomes from various environmental samples. Of course, several studies demonstrated the 16S ribosomal RNA could be considered as a barcode for bacteria classification at the genus level, but till now it is hard to identify the correct composition of metagenomic data from RNA-seq short-read data. 16S short-read data are generated using two next generation sequencing technologies, i.e. whole genome shotgun (WGS) and amplicon (AMP); typically, the former is filtered to obtain short-reads belonging to a 16S shotgun (SG), whereas the latter take into account only some specific 16S hypervariable regions. The above mentioned two sequencing technologies, SG and AMP, are used alternatively, for this reason in this work we propose a deep learning approach for taxonomic classification of metagenomic data, that can be employed for both of them.ResultsTo test the proposed pipeline, we simulated both SG and AMP short-reads, from 1000 16S full-length sequences. Then, we adopted a k-mer representation to map sequences as vectors into a numerical space. Finally, we trained two different deep learning architecture, i.e., convolutional neural network (CNN) and deep belief network (DBN), obtaining a trained model for each taxon. We tested our proposed methodology to find the best parameters configuration, and we compared our results against the classification performances provided by a reference classifier for bacteria identification, known as RDP classifier. We outperformed the RDP classifier at each taxonomic level with both architectures. For instance, at the genus level, both CNN and DBN reached 91.3% of accuracy with AMP short-reads, whereas RDP classifier obtained 83.8% with the same data.ConclusionsIn this work, we proposed a 16S short-read sequences classification technique based on k-mer representation and deep learning architecture, in which each taxon (from phylum to genus) generates a classification model. Experimental results confirm the proposed pipeline as a valid approach for classifying bacteria sequences; for this reason, our approach could be integrated into the most common tools for metagenomic analysis. According to obtained results, it can be successfully used for classifying both SG and AMP data.Electronic supplementary materialThe online version of this article (10.1186/s12859-018-2182-6) contains supplementary material, which is available to authorized users.

The method engineering paradigm enables designers to reuse portions of design processes (called method fragments or chunks in literature) to build processes that are expressly tailored for realising a system that is specific for some problem or development context. This paper initially reports on the standardisation attempt carried out by the FIPA Methodology Technical Committee (TC) and then presents the research activities we did starting from that work; these resulted in a slightly different definition of some of the most important elements of the approach in order to support a multiview representation of the fragment (the views are process, reuse, storing and implementation). The paper also describes the documents we used for representing a fragment and concludes with an example