Assists clinicians to establish the optimum revascularisation approach in patients with complex coronary artery disease. Syntax Score is a program that aids decision making between coronary artery bypass graft (CABG) and percutaneous coronary intervention (PCI). This tool includes a calculator to supply doctors an individual, patient-oriented treatment recommendation based on the mortality risk.
Offers well-established, broadly validated measures of phenotypes and exposures relevant to investigators in human genomics, epidemiology, and biomedical research. PhenX Toolkit is a catalog of recommended, standard measures of phenotypes and environmental exposures for use in biomedical research. It provides detailed protocols, information about the measures, and tools to help investigators incorporate PhenX measures into their studies.
Assists users to find polyps by providing visual feedback during colonoscopy. SAPPHIRE furnishes solution for polyp detection and polyp shot extraction. It is able to identify polyps, alert the endoscopist and extract polyp shots in near real-time. Furthermore, this program is composed of two subtools: Polyp-Alert, that supplies users images and information on polyps during colonoscopy; and EM-Automated-RT.
Provides a streamlined and simpler platform for estimates of program costs. LiST allows countries and researchers to calculate both the full financial costs and the impacts of maternal, neonatal and child health (MNCH) intervention scale up on morbidity and mortality. It relies on existing intervention inputs and cost databases to ensure consistency with other models which countries may be using.
Estimates recombination rates, has sophisticated interpolation methods and allows complex queries. MareyMap is integrated with physical and genetic maps from different organisms: one vertebrate - Homo sapiens; two invertebrates - Drosophila melanogaster, Caenorhabditis elegans; and one plant Arabidopsis thaliana. It includes sliding window to get local estimation with the slope of the best line fit to the data in a local window. The software is also available as a simplified web service for permitting to get recombination rates from personalized data or a public database.
Serves for selecting optimal cutpoints in diagnostic tests. OptimalCutpoints is an R package that enables end-users to choose from among a considerable number of strategies commonly used in clinical practice for optimal-cutpoint selection. It provides numerical and graphical results and allows optimal levels to be calculated automatically according to levels of certain covariates.
Aims to identify the complex relationships between phenotypes and environments. PhenoCurve splits the whole dataset into reliable and unreliable windows based on curve fitting, and then optimizes the results on the unreliable windows using regularized polynomial regression and maximum the posterior estimations. It is 1Qbased on Bayesian theorem and regularized polynomial regression.
Allows researchers to manage health and medical research data for humans and animals without specialized database skills or programming expertise. The Ark provides data management for core research information including demographic, phenotype, biospecimen and pedigree data, in addition to supporting typical investigator requirements such as tracking participant consent and correspondence, whilst also being able to generate custom data exports and reports. The Ark is study generic by design and highly configurable via its web interface, allowing researchers to tailor the system to the specific data management requirements of their study.
Allows retrieval of phenotypic and genetic data. ukbREST enables researchers to load the UK Biobank data into an SQL database, query any data field, and reproducibly document the phenotypes derived. The software is only reachable from the computer/server where it is installed. It can participate in making biobank’s valuable data accessible to the research community and facilitating reproducibility of the analysis.
Aims to facilitate the querying of various databases through the BD2K PIC-SURE RESTful API. Rcupcake is a package also containing an assortment of more than 15 functions for descriptive and univariate analysis as well as comorbidities studies. The application was developed for allowing the combination of multiple different variables such as clinical or biochemical information in a unified set, as well as the analysis of multiple layers of data.
Allows researchers and clinicians to collaborate to the elaboration of Computer Assisted Medical Intervention (CAMI) applications. CamiTK permits to regroup knowledge and expertise in various discipline. It introduces some abstraction of the software components, viewers and algorithms in order to ease the full collaboration between CAMI fields. The tool aims to fill the gap between highly specialized software covering different CAMI research aeras.
Extracts pitch cues from the Auditory Nerve (AN) population activity for a given arbitrary stimulus. SC Pitch copes with different pitch phenomena: extracting resolved and non-resolved harmonics, missing fundamental pitches, stimuli with both high and low amplitudes, iterated rippled noises, and recorded musical instruments. It is based on a technique known as sparse coding. The model represents input stimuli as sparse linear combinations of atoms, where each atom is derived from the AN population response to a pure tone.
Provides a platform to experiment with mechanisms that may drive the fracture healing process. Callus Analog Framework executes simulated healing and provides a record of an analog healing process. This software simulates how the histologic appearance of a mouse fracture callus may transition from day 7 to day 10. This method is extensible to other research areas to investigate and explain tissue level phenomena.
Determines an ideal number of clusters and permits users to assess their quality. progenyClust utilizes a technique that constructs new samples out of existing ones by sampling features independently. It permits users to diminish data size for re-clustering. This tool captures true and false classification when new samples are repetitively drawn and clustered using a co-occurrence probability matrix.
Estimates usual dietary intake including episodically consumed foods on the basis of two or more short-term measurements such as 24-h dietary recalls. MSM uses optional information regarding habitual use or non-use of a food. It allows nutritional scientists to calculate usual dietary intakes by combining short-term and long-term measurements (multiple sources). The tool is applicable to nutrient and food intake including episodically consumed foods. It can handle different distributions of food and nutrient data and constructs proper population distributions.
Assists users in picking a suited therapy for neuro-oncology patients. CNS TAP is an algorithm that takes into account drug properties, clinical and pre-clinical data, and patient-specific sequencing data for scoring relevant targeted agents. This program is available through a mobile application and the formula aims to be regularly updated by addition of new agents and published data.
Summarizes the impact of communicable disease in the European Union and European Economic Area Member States. The BCoDE toolkit is a user-friendly software for estimating the burden of communicable diseases. The toolkit facilitates communication between data analysts and users through multiple visualization options, ultimately fostering its value in health policy communication. It computes disease-specific results displayed as Disability-Adjusted Life Years (DALYs) calculated for the selected set of disease models, and based on the incidence values entered by the user. The BCoDE toolkit implements a very generic calculation engine that is not restricted to any specific disease model.
A software package for automatic phenotyping in C. elegans included in QuantWorm. WormGender is designed for accurate quantification of sex ratio in Caenorhabditis elegans. The software functions include, i) automatic recognition and counting of adult hermaphrodites and males, ii) a manual inspection feature that enables manual correction of errors, and iii) flexibility to use new training images to optimize the software for different imaging conditions. We evaluated the performance of our software by comparing manual and automated assessment of sex ratio. Our data showed that the WormGender software provided overall accurate sex ratio measurements.
Translates person-specific dynamic assessment data into a targeted, modularized treatment plan. DATA permits researchers to identify potential points of strength or weakness under controlled conditions. It can build personalized interventions in psychological science, and one that could be shown to be incorrect. The tool is able to quantify the incremental contributions of every input item to the overall pathology and generate a set of item scores.