Nearest neighbors weighted composite likelihood based on pairs for (non-)Gaussian massive spatial data with an application to Tukey-hh random fields estimation

A highly scalable method for (non-)Gaussian random fields estimation is proposed. In particular, a novel (a) symmetric weight function based on nearest neighbors for the method of maximum weighted composite likelihood based on pairs (WCLP) is studied. The new weight function allows estimating massive (up to millions) spatial datasets and improves the statistical efficiency of the WCLP method using symmetric weights based on distances, as shown in the numerical examples. As an application of the proposed method, the estimation of a novel non-Gaussian random field named Tukey-hh random field that has flexible marginal distributions (possibly skewed and/or heavy-tailed) is considered. In an extensive simulation study the statistical efficiency of the proposed nearest neighbors WCLP method with respect to the WCLP method using weights based on distances is explored when estimating the parameters of the Tukey-hh random field. In the Gaussian case the proposed method is compared with the Vecchia approximation from computational and statistical viewpoints. Finally, the effectiveness of the proposed methodology is illustrated by estimating a large dataset of mean temperatures in South -America. The proposed methodology has been implemented in an open-source package for the R statistical environment

Long-term outcomes of the global tuberculosis and COVID-19 co-infection cohort

Background: Longitudinal cohort data of patients with tuberculosis (TB) and coronavirus disease 2019 (COVID-19) are lacking. In our global study, we describe long-term outcomes of patients affected by TB and COVID-19. Methods: We collected data from 174 centres in 31 countries on all patients affected by COVID-19 and TB between 1 March 2020 and 30 September 2022. Patients were followed-up until cure, death or end of cohort time. All patients had TB and COVID-19; for analysis purposes, deaths were attributed to TB, COVID-19 or both. Survival analysis was performed using Cox proportional risk-regression models, and the log-rank test was used to compare survival and mortality attributed to TB, COVID-19 or both. Results: Overall, 788 patients with COVID-19 and TB (active or sequelae) were recruited from 31 countries, and 10.8% (n=85) died during the observation period. Survival was significantly lower among patients whose death was attributed to TB and COVID-19 versus those dying because of either TB or COVID-19 alone (p<0.001). Significant adjusted risk factors for TB mortality were higher age (hazard ratio (HR) 1.05, 95% CI 1.03-1.07), HIV infection (HR 2.29, 95% CI 1.02-5.16) and invasive ventilation (HR 4.28, 95% CI 2.34-7.83). For COVID-19 mortality, the adjusted risks were higher age (HR 1.03, 95% CI 1.02-1.04), male sex (HR 2.21, 95% CI 1.24-3.91), oxygen requirement (HR 7.93, 95% CI 3.44-18.26) and invasive ventilation (HR 2.19, 95% CI 1.36-3.53). Conclusions: In our global cohort, death was the outcome in >10% of patients with TB and COVID-19. A range of demographic and clinical predictors are associated with adverse outcomes

Goodbye Hartmann trial: a prospective, international, multicenter, observational study on the current use of a surgical procedure developed a century ago

Background: Literature suggests colonic resection and primary anastomosis (RPA) instead of Hartmann's procedure (HP) for the treatment of left-sided colonic emergencies. We aim to evaluate the surgical options globally used to treat patients with acute left-sided colonic emergencies and the factors that leading to the choice of treatment, comparing HP and RPA. Methods: This is a prospective, international, multicenter, observational study registered on ClinicalTrials.gov. A total 1215 patients with left-sided colonic emergencies who required surgery were included from 204 centers during the period of March 1, 2020, to May 31, 2020. with a 1-year follow-up. Results: 564 patients (43.1%) were females. The mean age was 65.9 ± 15.6 years. HP was performed in 697 (57.3%) patients and RPA in 384 (31.6%) cases. Complicated acute diverticulitis was the most common cause of left-sided colonic emergencies (40.2%), followed by colorectal malignancy (36.6%). Severe complications (Clavien-Dindo ≥ 3b) were higher in the HP group (P < 0.001). 30-day mortality was higher in HP patients (13.7%), especially in case of bowel perforation and diffused peritonitis. 1-year follow-up showed no differences on ostomy reversal rate between HP and RPA. (P = 0.127). A backward likelihood logistic regression model showed that RPA was preferred in younger patients, having low ASA score (≤ 3), in case of large bowel obstruction, absence of colonic ischemia, longer time from admission to surgery, operating early at the day working hours, by a surgeon who performed more than 50 colorectal resections. Conclusions: After 100 years since the first Hartmann's procedure, HP remains the most common treatment for left-sided colorectal emergencies. Treatment's choice depends on patient characteristics, the time of surgery and the experience of the surgeon. RPA should be considered as the gold standard for surgery, with HP being an exception

Techniques de compilation flexibles et rapides pour la parallelization polyédrique et spéculative

In this thesis, we present our contributions to APOLLO: an automatic parallelization compiler that combines polyhedral optimization with Thread-Level-Speculation, to optimize dynamic codes on-the-fly. Thanks to an online profiling phase and a speculation model about the target's code behavior, Apollo is able to select an optimization and to generate code based on it. During optimized code execution, Apollo constantly verifies the validity of the speculation model. The main contribution of this thesis is a code generation mechanism that is able to instantiate any polyhedral transformation, at runtime, without incurring a major time-overhead. This mechanism is currently in use inside Apollo. We called it Code-Bones. It provides significant performance benefits when compared to other approaches.Dans cette thèse, nous présentons nos contributions à APOLLO : un compilateur de parallélisation automatique qui combine l'optimisation polyédrique et la parallélisation spéculative, afin d'optimiser des programmes dynamiques à la volée. Grâce à une phase de profilage en ligne et un modèle spéculatif du comportement mémoire du programme cible, Apollo est capable de sélectionner une optimisation et de générer le code résultant. Pendant l'exécution du programme optimisé, Apollo vérifie constamment la validité du modèle spéculatif. La contribution principale de cette thèse est un mécanisme de génération de code qui permet d'instancier toute transformation polyédrique, au cours de l'exécution du programme cible, sans engendrer de surcoût temporel majeur. Ce procédé est désormais utilisé dans Apollo. Nous l'appelons Code-Bones. Il procure des gains de performance significatifs par comparaison aux autres approches

A flexible Clayton-like spatial copula with application to bounded support data

The Gaussian copula is a powerful tool that has been widely used to model spatial and/or temporal correlated data with arbitrary marginal distributions. However, this kind of model can potentially be too restrictive since it expresses a reflection symmetric dependence. In this paper, we propose a new spatial copula model that makes it possible to obtain random fields with arbitrary marginal distributions with a type of dependence that can be reflection symmetric or not. Particularly, we propose a new random field with uniform marginal distributions that can be viewed as a spatial generalization of the classical Clayton copula model. It is obtained through a power transformation of a specific instance of a beta random field which in turn is obtained using a transformation of two independent Gamma random fields. For the proposed random field, we study the second-order properties and we provide analytic expressions for the bivariate distribution and its correlation. Finally, in the reflection symmetric case, we study the associated geometrical properties. As an application of the proposed model we focus on spatial modeling of data with bounded support. Specifically, we focus on spatial regression models with marginal distribution of the beta type. In a simulation study, we investigate the use of the weighted pairwise composite likelihood method for the estimation of this model. Finally, the effectiveness of our methodology is illustrated by analyzing point-referenced vegetation index data using the Gaussian copula as benchmark. Our developments have been implemented in an open-source package for the R statistical environment

Copper-Catalyzed Huisgen 1,3-Dipolar Cycloaddition under Oxidative Conditions: Polymer-Assisted Assembly of 4‑Acyl-1-Substituted-1,2,3-Triazoles

We herein document the first example of a reliable copper-catalyzed Huisgen 1,3-dipolar cycloaddition under oxidative conditions. The combined use of two polymer-supported reagents (polystyrene-1,5,7-triaza­bicyclo­[4,4,0]­dec-5-ene/Cu and polystyrene-2-iodoxy­benzamide) overcomes the thermodynamic instability of copper­(I) species toward oxidation, enabling the reliable Cu-catalyzed Huisgen 1,3-dipolar cycloadditions in the presence of an oxidant agent. This polymer-assisted pathway, not feasible under conventional homogeneous conditions, provides a direct assembly of 4-acyl-1-substituted-1,2,3-triazoles, contributing to expand the reliability and scope of Cu­(I)-catalyzed alkyne–azide cycloaddition