Search results for "TOOLBOX"

Finding optimal finite biological sequences over finite alphabets: the OptiFin toolbox

2017

International audience; In this paper, we present a toolbox for a specific optimization problem that frequently arises in bioinformatics or genomics. In this specific optimisation problem, the state space is a set of words of specified length over a finite alphabet. To each word is associated a score. The overall objective is to find the words which have the lowest possible score. This type of general optimization problem is encountered in e.g 3D conformation optimisation for protein structure prediction, or largest core genes subset discovery based on best supported phylogenetic tree for a set of species. In order to solve this problem, we propose a toolbox that can be easily launched usin…

Integrative Gene Expression and Metabolic Analysis Tool IgemRNA

2022

ABSTRACTGenome scale metabolic modelling is widely used technique to research metabolism impacts on organism’s properties. Additional omics data integration enables a more precise genotype-phenotype analysis for biotechnology, medicine and life sciences. Transcriptome data amounts rapidly increase each year. Many transcriptome analysis tools with integrated genome scale metabolic modelling are proposed. But these tools have own restrictions, compatibility issues and the necessity of previous experience and advanced user skills. We have analysed and classified published tools, summarized possible transcriptome pre-processing, and analysis methods and implemented them in the new transcriptome…

A Global Sensitivity Analysis Toolbox to Quantify Drivers of Vegetation Radiative Transfer Models

2017

Abstract Global sensitivity analysis (GSA) enables to gain insight into the functioning of radiative transfer models (RTMs) by identifying the driving input variables of RTM spectral outputs such as reflectance, fluorescence, or radiance. This contribution introduces automated radiative transfer models operator's (ARTMO’s) new GSA toolbox. With the GSA toolbox the majority of ARTMO’s available RTMs can be decomposed into its driving variables. For a selected RTM output, a GSA identifies the most influential and noninfluential input variables according to Sobol' first-order and total-order indices. The toolbox can process RTM spectral outputs for any kind of optical sensor setting within the…

Distribution grid analysys through PSAT open source tools

2015

In this paper a study of an electrical distribution grid with presence of renewable energy sources performed using the Power System Analysis Tool is presented. The paper describes the load flow analysis of a real existing grid owned by the Italian DSO “ENEL Distribuzione SpA” and located in an urban area.

Reactive Polymers: A Versatile Toolbox for the Immobilization of Functional Molecules on TiO2 Nanoparticles

2006

geomIO: An Open‐Source MATLAB Toolbox to Create the Initial Configuration of 2‐D/3‐D Thermo‐Mechanical Simulations From 2‐D Vector Drawings

2019

Creating the initial geometry and temperature configuration of 3D numerical simulations is a challenging task. Professional tools are expensive. They often have a steep learning curve and do mostly not interface with the numerical simulation software used by the geodynamics and tectonics academic community. There, we developed geomIO (geometry Input/Output), a MATLAB toolbox to create the initial configuration of geological models regarding model geometry and temperature structure. geomIO allows users to create a geo-referenced 3D volume by drawing multiple 2D cross-sections in a standard vector graphics editor. The volume is then used to assign material properties and set up initial temper…

Enabling robotic adaptive behaviour capabilities for new industry 4.0 automated quality inspection paradigms

2020

The seamless integration of industrial robotic arms with server computers, sensors and actuators can revolutionise the way in which automated non-destructive testing (NDT) is performed and conceived. Achieving effective integration and realising the full potential of robotic systems presents significant challenges, since robots, sensors and end-effector tools are often not necessarily designed to be put together and form a holistic system. This paper presents recent breakthroughs, opening up new scenarios for the inspection of product quality in advanced manufacturing. Many years of research have brought to software platforms the ability to integrate external data acquisition instrumentatio…

Neural Mechanisms of Acceptance and Commitment Therapy for Chronic Pain: A Network-Based fMRI Approach

2021

AbstractOver 100 million Americans suffer from chronic pain (CP), which causes more disability than any other medical condition in the U.S. at a cost of $560-$635 billion per year (IOM, 2011). Opioid analgesics are frequently used to treat CP. However, long term use of opioids can cause brain changes such as opioid-induced hyperalgesia that, over time, increase pain sensation. Also, opioids fail to treat complex psychological factors that worsen pain-related disability, including beliefs about and emotional responses to pain. Cognitive behavioral therapy (CBT) can be efficacious for CP. However, CBT generally does not focus on important factors needed for long-term functional improvement, i…

Measuring Dissimilarity Between Curves by Means of Their Granulometric Size Distributions

2008

The choice of a dissimilarity measure between curves is a key point for clustering functional data. Functions are usually pointwise compared and, in many situations, this approach is not appropriate. Mathematical Morphology provides us with a toolbox to overcome this problem. We propose some dissimilarity measures based on morphological granulometries and their performance is evaluated on some functional datasets.

On the semi-automatic retrieval of biophysical parameters based on spectral index optimization

2014

Abstract: Regression models based on spectral indices are typically empirical formulae enabling the mapping of biophysical parameters derived from Earth Observation (EO) data. Due to its empirical nature, it remains nevertheless uncertain to what extent a selected regression model is the most appropriate one, until all band combinations and curve fitting functions are assessed. This paper describes the application of a Spectral Index (SI) assessment toolbox in the Automated Radiative Transfer Models Operator (ARTMO) package. ARTMO enables semi-automatic retrieval and mapping of biophysical parameters from optical remote sensing observations. The SI toolbox facilitates the assessment of biop…