Search results for " informatica"

Variable-order reference-free variant discovery with the Burrows-Wheeler Transform

2020

Abstract Background In [Prezza et al., AMB 2019], a new reference-free and alignment-free framework for the detection of SNPs was suggested and tested. The framework, based on the Burrows-Wheeler Transform (BWT), significantly improves sensitivity and precision of previous de Bruijn graphs based tools by overcoming several of their limitations, namely: (i) the need to establish a fixed value, usually small, for the order k, (ii) the loss of important information such as k-mer coverage and adjacency of k-mers within the same read, and (iii) bad performance in repeated regions longer than k bases. The preliminary tool, however, was able to identify only SNPs and it was too slow and memory con…

Improving Communication in Risk Management of Health Information Technology Systems by means of Medical Text Simplification

2019

Health Information Technology Systems (HITS) are increasingly used to improve the quality of patient care while reducing costs. These systems have been developed in response to the changing models of care to an ongoing relationship between patient and care team, supported by the use of technology due to the increased instance of chronic disease. However, the use of HITS may increase the risk to patient safety and security. While standards can be used to address and manage these risks, significant communication problems exist between experts working in different departments. These departments operate in silos often leading to communication breakdowns. For example, risk management stakeholder…

Cartoon filter via adaptive abstraction

2016

We propose a non-parametric methodology to realize abstraction images.The redundant wavelet "a trous" algorithm is applied for details detection.An multi-scale circular median filter is used as a smoothing filter.The proposed algorithm is simple and fast on low-cost entry-level hardware. Abstraction in computer graphics defines a procedure that discriminates the essential information that is worth keeping. Usually details, that correspond to higher frequency components, allow to distinguish otherwise similar images. Vice versa, low frequencies are related to the main information, which are larger structures. Contours themselves may also be identified by high frequencies and separate each pi…

Rethinking the sGLOH Descriptor

2018

sGLOH (shifting GLOH) is a histogram-based keypoint descriptor that can be associated to multiple quantized rotations of the keypoint patch without any recomputation. This property can be exploited to define the best distance between two descriptor vectors, thus avoiding computing the dominant orientation. In addition, sGLOH can reject incongruous correspondences by adding a global constraint on the rotations either as an a priori knowledge or based on the data. This paper thoroughly reconsiders sGLOH and improves it in terms of robustness, speed and descriptor dimension. The revised sGLOH embeds more quantized rotations, thus yielding more correct matches. A novel fast matching scheme is a…

Assessing complexity and causality in heart period variability through a model-free data-driven multivariate approach

2017

The aim of this study is to emphasize the importance of model-free data-driven mul- tivariate approaches in describing HP variability and cardiovascular control mechanisms responsible for inducing HP changes via modifications of different cardiovascular vari- ables such as SAP and RESP. The goal was achieved through the application, a previously proposed model-free data-driven multivariate framework devised to assess complexity and causality over a multivariate set composed by several, simultaneously recorded, car- diovascular variability series (Porta et al., 2014). The approach was applied to assess the complexity of the cardiac control, through the evaluation of the amount of irregularit…

Linear and nonlinear parametric model identification to assess granger causality in short-term cardiovascular interactions

2008

We assessed directional relationships between short RR interval and systolic arterial pressure (SAP) variability series according to the concept of Granger causality. Causality was quantified as the predictability improvement (PI) of a time series obtained when samples of the other series were used for prediction, i.e. moving from autoregressive (AR) to AR exogenous (ARX) prediction. AR and ARX predictions were performed both by linear and nonlinear parametric models. The PIs of RR given SAP and of SAP given RR, measuring baroreflex and mechanical couplings, were calculated in 15 healthy subjects in the resting supine and upright tilt positions. Using nonlinear models we found a bilateral i…

Need of causal analysis for assessing phase relationships in closed loop interacting cardiovascular variability series

2003

The phase spectra obtained by the classical closed loop autoregressive model (2AR) and by an open loop autoregressive model (ARXAR) were compared to shed light on the need of introducing causality in the assessment of the delay between RR and arterial pressure oscillations. The reliability of the two approaches was tested in simulation and real data setting. In simulation, the coupling strength of a bivariate closed loop process was adjusted to obtain a range of working conditions from open to closed loop. In open loop condition, 2AR and ARXAR phases were comparable and in agreement with the imposed delay. In closed loop condition, ARXAR model returned the imposed delays, while 2AR showed a…

Letter by Masè et al Regarding Article, "Granger Causality-Based Analysis for Classification of Fibrillation Mechanisms and Localization of Rotationa…

2020

A new Framework for the Spectral Information Decomposition of Multivariate Gaussian Processes

2021

: Different information-theoretic measures are available in the literature for the study of pairwise and higher-order interactions in multivariate dynamical systems. While these measures operate in the time domain, several physiological and non-physiological systems exhibit a rich oscillatory content that is typically analyzed in the frequency domain through spectral and cross-spectral approaches. For Gaussian systems, the relation between information and spectral measures has been established considering coupling and causality measures, but not for higher-order interactions. To fill this gap, in this work we introduce an information-theoretic framework in the frequency domain to quantify t…

GTVcut for neuro-radiosurgery treatment planning: an MRI brain cancer seeded image segmentation method based on a cellular automata model

2018

Despite of the development of advanced segmentation techniques, achieving accurate and reproducible gross tumor volume (GTV) segmentation results is still an important challenge in neuro-radiosurgery. Nowadays, magnetic resonance imaging (MRI) is the most prominent modality in radiation therapy for soft-tissue anatomical districts. Gamma Knife stereotactic neuro-radiosurgery is a minimally invasive technology for dealing with inaccessible or insufficiently treated tumors with traditional surgery or radiotherapy. During a treatment planning phase, the GTV is generally contoured by experienced neurosurgeons and radiation oncologists using fully manual segmentation procedures on MR images. Unf…