Search results for "FAST"
showing 10 items of 821 documents
RNACache: Fast Mapping of RNA-Seq Reads to Transcriptomes Using MinHashing
2021
The alignment of reads to a transcriptome is an important initial step in a variety of bioinformatics RNA-seq pipelines. As traditional alignment-based tools suffer from high runtimes, alternative, alignment-free methods have recently gained increasing importance. We present a novel approach to the detection of local similarities between transcriptomes and RNA-seq reads based on context-aware minhashing. We introduce RNACache, a three-step processing pipeline consisting of minhashing of k-mers, match-based (online) filtering, and coverage-based filtering in order to identify truly expressed transcript isoforms. Our performance evaluation shows that RNACache produces transcriptomic mappings …
Collinear laser spectroscopy of ZrII
2003
A new technique involving collinear laser spectroscopy of ion bunches has been used to study the radio-isotopes 87,87m,88,89,89m Zr.
Energy transfer to xanthene dyes in dansylated POPAM dendrimers
2011
Abstract Excitation energy transfer (EET) in host–guest complexes of dansylated POPAM dendrimers and xanthene dyes have been studied by transient absorption spectroscopy. EET from dansyl periphery to guests: rose bengal, eosin, or fluorescein, showed non-exponential behaviour as a result of distribution of donor–acceptor distances. Time constants range from 100 fs to 8 ps, independent of the dye and the dendrimer generation. Experiments suggested that in dendrimers binding more than one guest, EET among the guests becomes effective. Guest–host and guest–guest interactions induce non-radiative relaxation channels making excitation decays of the guests clearly faster in complexes than in solu…
Spatial Bayesian Modeling Applied to the Surveys of Xylella fastidiosa in Alicante (Spain) and Apulia (Italy)
2020
The plant-pathogenic bacterium Xylella fastidiosa was first reported in Europe in 2013, in the province of Lecce, Italy, where extensive areas were affected by the olive quick decline syndrome, caused by the subsp. pauca. In Alicante, Spain, almond leaf scorch, caused by X. fastidiosa subsp. multiplex, was detected in 2017. The effects of climatic and spatial factors on the geographic distribution of X. fastidiosa in these two infested regions in Europe were studied. The presence/absence data of X. fastidiosa in the official surveys were analyzed using Bayesian hierarchical models through the integrated nested Laplace approximation (INLA) methodology. Climatic covariates were obtained from …
Modeling the Spatial Distribution of Xylella fastidiosa: A Nonstationary Approach with Dispersal Barriers
2022
Spatial species distribution models often assume isotropy and stationarity, implying that spatial dependence is direction-invariant and uniform throughout the study area. However, these assumptions are violated when dispersal barriers are present. Despite this, the issue of nonstationarity has been little explored in the context of plant health. The objective of this study was to evaluate the influence of barriers in the distribution of Xylella fastidiosa in the demarcated area in Alicante, Spain. Occurrence data from 2018 were analyzed through spatial Bayesian hierarchical models. The stationary model, illustrating a scenario without control interventions or geographical features, was com…
Roughness evaluation of vine leaf by image processing
2013
International audience; The study of leaf surface roughness is very important in the domain of precision spraying. It is one of the parameters that allow to reduce costs and losses of phytosanitary prod- ucts and to improve the spray accuracy. Moreover, the leaf roughness is related to adhesion mechanisms of liquid on a surface. It can be used to define leaf nature surface (hy- drophilic/hydrophobic). The main goal of this study is thus to estimate and to follow the evolution of leaf roughness using image processing and computer vision. The develop- ment and application of computer vision for measurement of surface leaf roughness using artificial neural networks will be described. The syste…
Observation of laser-induced field-free permanent planar alignment of molecules
2011
International audience; Permanent planar alignment of gas-phase linear molecules is achieved by a pair of delayed perpendicularly polarized short laser pulses. The experiment is performed in a supersonic jet, ensuring a relatively high number density of molecules with moderately low rotational temperature. The effect is optically probed on a femtosecond time scale by the use of a third short pulse, enabling a time-resolved birefringence detection performed successively in two perpendicular planes of the laboratory frame. The technique allows for an unambiguous estimation of the molecular planar delocalization produced within the polarization plane of the pulse pair after the turn-off of the…
Higher-order Kerr terms allow ionization-free filamentation in gases
2010
International audience; We show that higher-order nonlinear indices (n4 , n6 , n8 , n10) provide the main defocusing contribution to self-channeling of ultrashort laser pulses in air and Argon at 800 nm, in contrast with the previously accepted mechanism of filamentation where plasma was considered as the dominant defocusing process. Their consideration allows to reproduce experimentally observed intensities and plasma densities in self-guided filaments.
High-order Kerr nonlinearity of air calibrated with transient molecular alignment
2009
Talk given by O. Faucher; International audience; Nonlinear electronic Kerr index of the major air constituents has been measured up to high order terms using transient molecular alignment as a reference. Sign reversal associated to negative nonlinearity is observed above a pulse intensity of 26 TW/cm^2.
Temporal analogue of the Fresnel diffraction by a phase plate in linear and nonlinear optical fibers
2021
The analogy existing between spatial and temporal optics has motivated many studies to interpret spatial phenomena in the domain of ultrafast optics [1] . Indeed, dispersion and one-dimensional diffraction may share the same mathematical formalism. Temporal analogues of common optical systems have been proposed such as lenses, imaging systems, diffraction gratings, which opens up a whole range of new possibilities for ultrafast photonics.