User-friendly Graphical Interface Research Articles

Machine learning – based approach for predicting pushover curves of low-rise reinforced concrete frame buildings

Reinforced Concrete (RC) frame buildings are prevalent worldwide due to their seismic performance and the broad availability of materials. Pushover analysis is regarded as one way to assess the seismic performance of these buildings, which is simple to interpret. The only downside of this method is that it requires developing nonlinear models, which can be time-consuming and computationally expensive. Recently, Machine Learning (ML) has emerged as an alternative to approximate the pushover response of RC frame buildings. However, there are still improvements in several areas, such as including relevant and easily obtainable parameters in structural design (e.g. reinforcement ratios), considering a wide range of building configurations, and comparing different ML techniques. This paper presents the development of two models based on Random Forest (RF) and Artificial Neural Network (ANN) to predict the pushover response of low-rise RC frame buildings, supported by a user-friendly graphical interface. First, a dataset of over 138000 Pushover analyses was performed on flexure-controlled RC frames ranging from two to five stories using OpenSeesPy, subsequently used to develop predictive ML models. These models are designed to offer a trilinear approximation of a building's Pushover curve, and they require input information that is available from the customary building design. The pushover predictions obtained with RF and ANN take 0.12 % and 3.05 % of the computing time compared to the OpensSeesPy nonlinear model. The proposed models demonstrate a high level of accuracy, with a coefficient of determination (R²) of over 0.88 and 0.81 in testing datasets for RF and ANN models, underscoring their potential to significantly streamline the seismic performance assessment process by providing quick Pushover curve estimations.

Tuning the structural and mechanical properties of SiC-Li and SiC-Na alloys for aerospace application: an ab initio study

Aluminum (Al) and its alloys are popular in the aerospace industry due to their high strength-to-weight ratio, corrosion resistance, and ductility. However, these properties (extreme ductility and malleability) can compromise corrosion resistance, making them susceptible to dents and scratches. Silicon Carbide (SiC) is a promising alternative to Al and it alloys due to its higher Youngs modulus and excellent wear resistance, although it has the drawbacks of brittleness and higher density. This study investigated the structural and mechanical properties of SiC alloyed with lithium (SiC-Li) or sodium (SiC-Na) using ab initio calculations with the aim of tuning the structural and mechanical properties of SiC. Modeling was done using Burai software, which offers a friendly graphical user interface for Quantum ESPRESSO, thus facilitating the creation of input files, visualization of crystal structures and analysis of results. The results from this study showed that the addition of Li and Na lowered the density as well as the mechanical properties of SiC but still being favorably better than those of Al and its alloys, suggesting that the modeled alloys could potentially replace the traditional Al and its alloys in the aerospace industry. Further experimental studies are needed to validate these findings and to explore the possibility of simultaneous alloying of SiC with both Li and Na for enhanced performance.

Reference Sequence Browser: An R application with a user-friendly GUI to rapidly query sequence databases.

Land managers, researchers, and regulators increasingly utilize environmental DNA (eDNA) techniques to monitor species richness, presence, and absence. In order to properly develop a biological assay for eDNA metabarcoding or quantitative PCR, scientists must be able to find not only reference sequences (previously identified sequences in a genomics database) that match their target taxa but also reference sequences that match non-target taxa. Determining which taxa have publicly available sequences in a time-efficient and accurate manner currently requires computational skills to search, manipulate, and parse multiple unconnected DNA sequence databases. Our team iteratively designed a Graphic User Interface (GUI) Shiny application called the Reference Sequence Browser (RSB) that provides users efficient and intuitive access to multiple genetic databases regardless of computer programming expertise. The application returns the number of publicly accessible barcode markers per organism in the NCBI Nucleotide, BOLD, or CALeDNA CRUX Metabarcoding Reference Databases. Depending on the database, we offer various search filters such as min and max sequence length or country of origin. Users can then download the FASTA/GenBank files from the RSB web tool, view statistics about the data, and explore results to determine details about the availability or absence of reference sequences.

Development of an Open-Source Robotic NDT Solution for Automated Composite Repair Testing

Abstract Non-destructive testing (NDT) plays an important role in aircraft maintenance and repair processes, ensuring the structural integrity necessary for safe operation. The paper presents the design and evaluation of an animated, low-cost robotic NDT system tailored for inspecting composite bonding agents. The system integrates commercially available components, including a three-degree-of-freedom robotic arm and a Raspberry Pi 4B, managed by custom Python software with a user-friendly graphical interface. Mechanical Impedance Analysis (MIA) and Eddy Current Testing (ET) methods were employed to assess the system’s performance on representative test specimens. Results indicate that the system delivers reliable and accurate measurements comparable to commercial tools like the MAUS V, while offering simplicity and modularity. Limitations such as scanning speed and handling of complex geometries are acknowledged, with potential solutions proposed for future enhancement. The system provides an affordable and customizable alternative for NDT automation in the aerospace industry.

Automated denoising software for calcium imaging signals using deep learning

Dynamic Ca2+ signaling is crucial for cell survival and death, and Ca2+ imaging approaches are commonly used to study and measure cellular Ca2+ patterns within cells. However, the presence of image noise from instrumentation and experimentation protocols can impede the accurate extraction of Ca2+ signals. Removing noise from Ca2+ Spatio-Temporal Maps (STMaps) is essential for precisely analyzing Ca2+ datasets. Current methods for denoising STMaps can be time-consuming and subjective and rely mainly on image processing protocols. To address this, we developed CalDenoise, an automated software that employs robust image processing and deep learning models to remove noise and enhance Ca2+ signals in STMaps effectively. CalDenoise integrates four pipelines capable of efficiently removing salt-and-pepper, impulsive, and periodic noise and detecting and removing background noise. Comprising both an image-processing-based pipeline and three generative-adversarial-network-based (GAN) deep learning models, CalDenoise proficiently removes complex noise patterns. The software features adjustable parameters to enhance accuracy and is integrated into a user-friendly graphical interface for easy access and streamlined usage.CalDenoise can serve as a robust platform for denoising complex dynamic fluorescence signal images across diverse cell types, including Ca2+, voltage, ions, and pH signals.

Prediction of seismic performance of steel frame structures: A machine learning approach

The study of seismic performance in structural engineering is deemed crucial due to the intricate and unpredictable nature of earthquakes. This study explores advanced seismic performance prediction in structural engineering using machine learning techniques. Non-Linear Dynamic Analysis (NDA) was conducted on Steel Moment-Resisting Frames (SMRFs) situated on soil type D in seismic zone II with varying configurations using ETABS software. A substantial dataset comprising 29,200 data points from 292 models was generated to train machine learning models aimed at predicting the Maximum Inter-Story Drift Ratio (M-IDR), a critical parameter for assessing seismic limit-state capacity. The machine learning models, including Random Forest (RF), Extreme Gradient Boosting Machine (XGBoost), and Artificial Neural Networks (ANN), demonstrated high accuracy with R2 of 0.9625, 0.95327, and 0.94247 respectively, indicating a robust correlation between predicted and actual values. These results imply that the trained models can effectively predict seismic performance with high precision. A user-friendly Graphical User Interface (GUI) was developed using the trained models to facilitate the practical application of these models, significantly reducing computational costs and analytical efforts for researchers and engineers. The findings underscore the potential of integrating machine learning with structural engineering to enhance seismic performance predictions, contributing to the development of safer and more resilient structures.

GP-Plotter: Flexible Spectral Visualization for Proteomics Data with Emphasis on Glycoproteomics Analysis.

Identification evaluation and result dissemination are essential components in mass spectrometry-based proteomics analysis. The visualization of fragment ions in mass spectrum provides strong evidence for peptide identification and modification localization. Here, we present an easy-to-use tool, named GP-Plotter, for ion annotation of tandem mass spectra and corresponding image output. Identification result files of common searching tools in the community and user-customized files are supported as input of GP-Plotter. Multiple display modes and parameter customization can be achieved in GP-Plotter to present annotated spectra of interest. Different image formats, especially vector graphic formats, are available for image generation which is favorable for data publication. Notably, GP-Plotter is also well-suited for the visualization and evaluation of glycopeptide spectrum assignments with comprehensive annotation of glycan fragment ions. With a user-friendly graphical interface, GP-Plotter is expected to be a universal visualization tool for the community. GP-Plotter has been implemented in the latest version of Glyco-Decipher (v1.0.4) and the standalone GP-Plotter software is also freely available at https://github.com/DICP-1809.

Asthma Care Chatbot

Asthma is a chronic respiratory condition affecting millions of people worldwide, characterized by inflammation and narrowing of the airways, leading to symptoms such as coughing, wheezing, and shortness of breath. Managing asthma effectively requires timely intervention and personalized care to alleviate symptoms and prevent exacerbations. In this context, the Asthma Care Chatbot serves as an innovative solution to assist individuals in managing their asthma symptoms more efficiently. Leveraging advancements in technology and machine learning, this chatbot provides personalized recommendations based on user-reported symptoms, age, and gender. By integrating a user-friendly graphical interface, the chatbot aims to enhance accessibility and usability for individuals seeking guidance on managing their asthma condition. This project utilizes a machine learning model trained on a dataset comprising asthma severity data to predict the severity of symptoms reported by users. Through an intuitive interface, users can input their symptoms, demographic information, and receive real-time predictions regarding the severity of their asthma symptoms. Based on the predicted severity level, the chatbot offers tailored recommendations, ranging from self-care measures to prompt medical intervention. Furthermore, the chatbot's performance is evaluated using various metrics such as accuracy, precision, recall, and F1 score, ensuring its reliability and effectiveness in providing accurate predictions. By continuously refining its recommendations based on user feedback and data-driven insights, the Asthma Care Chatbot aims to empower individuals to take proactive steps in managing their asthma condition and improving their quality of life. Asthma Care Chatbot represents a pioneering approach towards personalized asthma management, bridging the gap between individuals and accessible healthcare solutions through the integration of technology and machine learning. By offering personalized guidance and support, the chatbot endeavours to empower individuals in effectively managing their asthma symptoms and promoting better.

OCTA-ReVA: an open-source toolbox for comprehensive retinal vessel feature analysis in optical coherence tomography angiography.

Optical coherence tomography angiography (OCTA) has significantly advanced the study and diagnosis of eye diseases. However, current clinical OCTA systems and software tools lack comprehensive quantitative analysis capabilities, limiting their full clinical utility. This paper introduces the OCTA Retinal Vessel Analyzer (OCTA-ReVA), a versatile open-source platform featuring a user-friendly graphical interface designed for the automated extraction and quantitative analysis of OCTA features. OCTA-ReVA includes traditional established OCTA features based on binary vascular image processing, such as blood vessel density (BVD), foveal avascular zone area (FAZ-A), blood vessel tortuosity (BVT), and blood vessel caliber (BVC). Additionally, it introduces new features based on blood perfusion intensity processing, such as perfusion intensity density (PID), vessel area flux (VAF), and normalized blood flow index (NBFI), which provide deeper insights into retinal perfusion conditions. These additional capabilities are crucial for the early detection and monitoring of retinal diseases. OCTA-ReVA demystifies the intricate task of retinal vasculature quantification, offering a robust tool for researchers and clinicians to objectively evaluate eye diseases and enhance the precision of retinal health assessments.

Explainable ensemble learning graphical user interface for predicting rebar bond strength and failure mode in recycled coarse aggregate concrete

Novel study deploys robust machine learning algorithms using newly built comprehensive dataset to predict reinforcing rebar-to-recycled coarse aggregate concrete (RCA) bond strength and failure mode. Prior investigations have solely concentrated on bond strength, resulting in a limited comprehension of the bond failure pattern. Considering the increasing significance of sustainable construction methods, it is crucial to examine both the failure pattern and bond strength to expand the versatility of RCA in various reinforced concrete structures. Accordingly, XGBoost, CatBoost, Random Forest, and LightGBM were trained for this purpose. Model performance was appraised using various statistical metrics, while failure classification performance was assessed using accuracy, recall, and precision indicators. Model performance was ranked using Copeland's algorithm. Feature importance was quantified using SHAP. Coefficient of determination of 0.91 was achieved by XGBoost in predicting bond strength, outperforming other nine analytical models in literature. Failure mode was predicted with accuracy of 94% by CatBoost, XGBoost, and LightGBM. Embedment length and compressive strength features had greatest influence on bond strength and failure mode, respectively. User-friendly graphical interface was developed to harvest ML models in real-world engineering practice. Online free access accurately assigns to any given combination of input features corresponding accurate rebar bond strength and failure mode.

Comparative study of statistical computational approaches to investigate the degraded compressive strength of concrete under the freeze-thaw effect

The primary cause of frost damage and early failure in concrete structures is the repeated freezing and thaw cycles (FTC). The evolution of internal fractures and scaling at the surface of concrete can be used to assess the impact of frost damage. Surface scaling mechanisms and interior frost damage are contingent upon numerous environmental factors, including the rate of freezing, low temperature, and duration of the freezing point. However, evaluating the amount of strength loss of concrete material is a challenging factor to consider. This work explores the application of predictive modelling tools, including random forest (RF), multilayer perceptron (MLP), decision tree (DT), and bagging, to evaluate the degraded compressive strength (D-CS) of concrete. The models use five input variables: initial compressive strength (I-CS), water-to-cement ratio (W/C), FTC, minimum temperature (Tmin), and maximum temperature (Tmax), with D-CS as the output. Model performance was compared using mean absolute error (MAE), root mean square error (RMSE), and coefficient of determination (R²) metrics, with the bagging model achieving the highest predictive performance at 92 %. A 10-fold cross-validation approach validated the model's accuracy. The influence of each variable was assessed using SHapley Additive exPlanations (SHAP) analysis. Importantly, a user-friendly Graphical User Interface (GUI) was developed based on the models, making it easy for researchers and professionals to make predictions and thereby increasing the practicality and accessibility of this research. This study aids the research community in selecting appropriate models to forecast the strength of various concrete types, thereby enhancing the practical application of this research.

Analysis and Visualization of Quantitative Proteomics Data Using FragPipe-Analyst.

The FragPipe computational proteomics platform is gaining widespread popularity among the proteomics research community because of its fast processing speed and user-friendly graphical interface. Although FragPipe produces well-formatted output tables that are ready for analysis, there is still a need for an easy-to-use and user-friendly downstream statistical analysis and visualization tool. FragPipe-Analyst addresses this need by providing an R shiny web server to assist FragPipe users in conducting downstream analyses of the resulting quantitative proteomics data. It supports major quantification workflows, including label-free quantification, tandem mass tags, and data-independent acquisition. FragPipe-Analyst offers a range of useful functionalities, such as various missing value imputation options, data quality control, unsupervised clustering, differential expression (DE) analysis using Limma, and gene ontology and pathway enrichment analysis using Enrichr. To support advanced analysis and customized visualizations, we also developed FragPipeAnalystR, an R package encompassing all FragPipe-Analyst functionalities that is extended to support site-specific analysis of post-translational modifications (PTMs). FragPipe-Analyst and FragPipeAnalystR are both open-source and freely available.

MPPD: A User-Friendly Posture Deformation Program for Mesh-Type Computational Phantoms.

Recently, the International Commission on Radiological Protection (ICRP) released adult Mesh-type Reference Computational Phantoms (MRCPs), which have great advantage in high deformability. Previous studies have exploited their high deformability to investigate the dosimetric influence of varying statures and postures, demonstrating significant variations in radiation doses. However, the previous studies are constrained by their inability to consider both stature and posture concurrently and by the limited range of postures analyzed. In the present study, a computer program named MPPD (Mesh-type Phantom Posture Deformer) was developed, a user-friendly graphical user interface that enables users to adjust the posture of adult MRCPs and corresponding library phantoms. The MPPD program was applied to deform five adult male phantoms of different statures into sitting and kneeling postures, showcasing its rapid computational speed and minimal RAM usage. The effectiveness of the MPPD program for dose calculation was also investigated by computing the detriment-weighted doses for MPPD-deformed adult male MRCPs, which showed good agreement with dose values for existing posture-deformed phantoms of the previous study. Furthermore, as an application of the MPPD program, the combined dosimetric impact of stature and posture was investigated, which is the inaugural effort to estimate doses by considering these factors concurrently. The result showed that the impact of stature and posture on radiation doses could largely vary depending on the radiation source, highlighting the importance of simultaneous consideration of stature and posture for accurate dose estimation.

Design and Implementation of an Interactive Embedded System as a Low-Cost Remotely Operated Vehicle for Underwater Applications

The underwater environment is harsh and challenging for human life, prompting companies and researchers to develop advanced technologies for exploration. Building on previous work that applied a CNN-based method for underwater object classification, this paper focuses on the design and implementation of an interactive embedded system for a compact Remotely Operated Vehicle (ROV) with specific dimensions and weight. The primary goal is to capture real-time underwater video using remote control communication via Ethernet. The ROV is powered by five brushless motors controlled by a smart PID controller. Precise pulse-width modulation signals enhance stability during movements along three axes, enabling high-resolution video capture. The system utilizes the Raspberry Pi 3's computing power for motion control, positioning, temperature monitoring, and video acquisition. Experimental results demonstrate the system's capability to process 42 frames per second. A user-friendly graphical interface allows for remote ROV control across various operating systems. With a depth rating of 100 meters and speed of 0.148 m/s. This ROV surpasses human divers' limitations and holds significant potential for applications in surveillance, operations, maintenance, and measurement tasks underwater. The proposed ROV contributes to the advancement of underwater exploration technology by combining high performance with cost-effectiveness.

Accurate Prediction of Compression Index of Normally Consolidated Soils Using Artificial Neural Networks

The compression index (Cc) serves as a crucial parameter in predicting consolidation settlement in fine-grained soils, representing the slope of the void ratio logarithmic effective stress curve obtained from oedometer tests. However, traditional consolidation testing methods are notably time-consuming, typically spanning a 15-day period for preparation, execution, and parameter calculation, leading to significant delays in civil engineering projects. Therefore, there is an urgent need for effective methodologies to determine consolidation parameters within a shorter timeframe. Although various empirical formulas have been proposed over the years to correlate compressibility with soil parameters, none have reliably predicted the Cc across different datasets. In this study, to overcome this challenge, an alternative approach using artificial neural network (ANN) methodology to predict the compression index of fine-grained soils based on index properties is proposed. For this purpose, an ANN was trained and validated using a dataset consisting of 560 high and low- plasticity soil samples obtained from construction sites in various regions of Turkey over the last forty years, as well as soil borings in Istanbul. The modeling of artificial neural networks was performed using the Regression Learner program, which integrates with the Matlab 2023a software package and offers a user-friendly graphical interface for AI model development without coding. The data set, which was structured as a matrix with dimensions of 458 × 6, included input parameters such as the natural water content, liquid limit, plastic limit, plastic index and initial void ratio, as well as information on the compression index, which was the output variable. The developed ANN model showed an outstanding predictive performance when predicting the output of the test data, achieving an outstanding R2 score of 0.81. This underlines the potential of ANN methodologies to efficiently extract important data with fewer experiments and in less time, and offers promising applications in the field of geotechnical engineering.

Democratizing cheminformatics: interpretable chemical grouping using an automated KNIME workflow

With the increased availability of chemical data in public databases, innovative techniques and algorithms have emerged for the analysis, exploration, visualization, and extraction of information from these data. One such technique is chemical grouping, where chemicals with common characteristics are categorized into distinct groups based on physicochemical properties, use, biological activity, or a combination. However, existing tools for chemical grouping often require specialized programming skills or the use of commercial software packages. To address these challenges, we developed a user-friendly chemical grouping workflow implemented in KNIME, a free, open-source, low/no-code, data analytics platform. The workflow serves as an all-encompassing tool, expertly incorporating a range of processes such as molecular descriptor calculation, feature selection, dimensionality reduction, hyperparameter search, and supervised and unsupervised machine learning methods, enabling effective chemical grouping and visualization of results. Furthermore, we implemented tools for interpretation, identifying key molecular descriptors for the chemical groups, and using natural language summaries to clarify the rationale behind these groupings. The workflow was designed to run seamlessly in both the KNIME local desktop version and KNIME Server WebPortal as a web application. It incorporates interactive interfaces and guides to assist users in a step-by-step manner. We demonstrate the utility of this workflow through a case study using an eye irritation and corrosion dataset.Scientific contributionsThis work presents a novel, comprehensive chemical grouping workflow in KNIME, enhancing accessibility by integrating a user-friendly graphical interface that eliminates the need for extensive programming skills. This workflow uniquely combines several features such as automated molecular descriptor calculation, feature selection, dimensionality reduction, and machine learning algorithms (both supervised and unsupervised), with hyperparameter optimization to refine chemical grouping accuracy. Moreover, we have introduced an innovative interpretative step and natural language summaries to elucidate the underlying reasons for chemical groupings, significantly advancing the usability of the tool and interpretability of the results.

Controller design and remote piloting training module development for unmanned cropped delta reflex wing configuration

In this study, a cost-effective high-fidelity six-degree of freedom module augmented with an onboard controller is developed. The unmanned aerial vehicle (UAV) under consideration is a wing-alone configuration with a cropped delta planform and reflex airfoil cross-section designed to perform manoeuvres at high angles of attack. The six-degree of freedom dynamics for the aforementioned configuration is developed based on Newtonian mechanics incorporating linear and nonlinear aerodynamic models to expand flight simulations in corresponding regimes. Aerodynamic stability and control parameters for the simulations are obtained from full-scale wind tunnel measurements and flight tests. It is observed that the linear aerodynamic model is valid in angle of attack (α) domain −5°≤α≤10°, followed by nonlinearity up to α≈21°, post which lift coefficient remains almost constant with angle of attack till 45°. The simulation model is validated with the corresponding flight data obtained from flight tests. A user-friendly graphical interface with real-time animation of UAV has been developed for the aforementioned configuration by integrating MATLAB and Flightgear environment with real-time control input from the hardware to enable the pilot for visual and tactile feedback, respectively. A controller based on total energy control is designed for velocity and altitude hold modes, while an attitude hold controller is designed for pitch and roll angle tracking to enable controller-in-the-loop remote piloting simulations. In order to enhance practical applicability, the designed module has been tested under various simulated wind conditions. It is noticed from the results that the steady-state error in attitude remains below 2% with a maximum overshoot of 5° from reference. The total energy controller achieves a zero steady-state error with a maximum overshoot of 2 m/s for velocity and 6 m for altitude, respectively. The developed module enhances remote piloting training, flight response assessment, and control algorithm testing for cropped delta planform UAVs.

OOPS: Object-Oriented Polarization Software for analysis of fluorescence polarization microscopy images.

Most essential cellular functions are performed by proteins assembled into larger complexes. Fluorescence Polarization Microscopy (FPM) is a powerful technique that goes beyond traditional imaging methods by allowing researchers to measure not only the localization of proteins within cells, but also their orientation or alignment within complexes or cellular structures. FPM can be easily integrated into standard widefield microscopes with the addition of a polarization modulator. However, the extensive image processing and analysis required to interpret the data have limited its widespread adoption. To overcome these challenges and enhance accessibility, we introduce OOPS (Object-Oriented Polarization Software), a MATLAB package for object-based analysis of FPM data. By combining flexible image segmentation and novel object-based analyses with a high-throughput FPM processing pipeline, OOPS empowers researchers to simultaneously study molecular order and orientation in individual biological structures; conduct population assessments based on morphological features, intensity statistics, and FPM measurements; and create publication-quality visualizations, all within a user-friendly graphical interface. Here, we demonstrate the power and versatility of our approach by applying OOPS to punctate and filamentous structures.

The DairyPrint Model: A Decision-Support Model to Help Dairy Farmers and Other Stakeholders Towards Improved Sustainability

Dairy farmers face increasing pressure to reduce greenhouse gas (GHG) emissions [i.e., carbon dioxide (CO2), methane (CH4), and nitrous oxide (N2O)], but measuring on-farm GHG emissions directly is costly or impractical. Therefore, the dairy industry has relied upon mathematical models to estimate those emissions. However, current models tend to be not user-friendly, difficult to access or sometimes very research-focused, limiting their practical use. To address this, we introduce the DairyPrint model, a user-friendly tool designed to estimate GHG emissions from dairy farming. The model integrates herd dynamics, manure management, crop, and feed costs considerations, simplifying the estimation process while providing comprehensive insights. The herd module simulates monthly herd dynamics based on inputs as total cows, calving interval, and culling rate, outputting average annual demographics and estimating various animal related variables (i.e., dry matter intake, milk yield, manure excretion, and enteric CH4 emissions). These outputs feed into other modules, such as the manure module, which calculates emissions based on manure, weather data, and facility type. The manure module processes manure according to farm practices, and the crop module accounts for GHG emissions from manure, fertilizers, and limestone application, also estimating nutrient balances. The DairyPrint model was developed using the Shiny framework and the Golem package for robust production-grade shiny applications in the R programming language. We evaluated the model across 32 simulation scenarios by combining various factors and considering a standard free-stall system with 1000 dairy cows averaging 40 kg/day of milk production. These factors included 2 levels of NDF-ADF in the diet (28-22.8% and 24-19.5%), the presence or absence of 3-NOP dietary addition (yes or no) at an average dose of 70 mg/kg DM per cow daily, the type of bedding used (sawdust or sand), the frequency of manure pond emptying [once (only Fall) or twice a year (Fall and Spring)], and the utilization or non-utilization of a biodigester plus solid-liquid separator (Biod + SL). In our results across the 32 scenarios simulated, the average GHG emission was 0.811 kgCO2eq/kg of milk corrected for fat and protein contents (4% and 3.3%, respectively), ranging from 0.644 to 1.082. Notably, the scenario yielding the lowest GHG emission (i.e., 0.644 kgCO2eq/kg) involved a combination of factors, including a lower level of NDF-ADF in the diet in addition to incorporation of 3-NOP, utilization of sand as bedding, application of Biod + SL, and strategic manure pond emptying in both Fall and Spring. Conversely, the scenario that resulted in the highest GHG emission (i.e., 1.082 kgCO2eq/kg) involved a combination of higher level of NDF-ADF in the diet and excluded the incorporation of 3-NOP, utilization of sawdust as bedding, no application of Biod + SL, and manure pond emptying only in Fall. All these scenarios can be easily simulated in the DairyPrint model and results obtained immediately for user evaluation. Therefore, the DairyPrint model can help farmers move toward improved sustainability, providing a user-friendly and intuitive graphical user interface allowing the user to ask what-if questions.

BIDSAlign: a library for automatic merging and preprocessing of multiple EEG repositories

Objective.This study aims to address the challenges associated with data-driven electroencephalography (EEG) data analysis by introducing a standardised library calledBIDSAlign. This library efficiently processes and merges heterogeneous EEG datasets from different sources into a common standard template. The goal of this work is to create an environment that allows to preprocess public datasets in order to provide data for the effective training of deep learning (DL) architectures.Approach.The library can handle both Brain Imaging Data Structure (BIDS) and non-BIDS datasets, allowing the user to easily preprocess multiple public datasets. It unifies the EEG recordings acquired with different settings by defining a common pipeline and a specified channel template. An array of visualisation functions is provided inside the library, together with a user-friendly graphical user interface to assist non-expert users throughout the workflow.Main results.BIDSAlign enables the effective use of public EEG datasets, providing valuable medical insights, even for non-experts in the field. Results from applying the library to datasets from OpenNeuro demonstrate its ability to extract significant medical knowledge through an end-to-end workflow, facilitating group analysis, visual comparison and statistical testing.Significance.BIDSAlign solves the lack of large EEG datasets by aligning multiple datasets to a standard template. This unlocks the potential of public EEG data for training DL models. It paves the way to promising contributions based on DL to clinical and non-clinical EEG research, offering insights that can inform neurological disease diagnosis and treatment strategies.