12 papers · ranked by Valyu relevance
Odd Petter Sand, Elise Lockwood, Marcos D. Caballero, Knut Mørken
We present here the lessons learned by iteratively designing a tutorial for first-year university students using computer programming to work with mathematical models. Alternating between design and implementation, we used video-taped task interviews and classroom observations to ensure that the design promoted student…
Stephen Coshatt, He Yang, Shushan Wu, Jin Ye + 5 more
As machine learning and artificial intelligence are being integrated into cyber-physical systems, it is becoming important for engineers to know and understand these topics. In particular, sensor data is on the rise in these systems and therefore engineers need to understand which models are appropriate to time-series…
Laura Mickes, Travis M. Seale-Carlisle, Xueqing Chen, Stewart Boogert
'Stewart Boogert'] pyWitness is a python toolkit for recognition memory experiments, with a focus on eyewitness identification (ID) data analysis and model fitting. The current practice is for researchers to use different statistical packages to analyze a single dataset. pyWitness streamlines the process. In addition…
Gustavo Schiavone Crestana, Ubiratan da Silva Batista, Michelli Inácio Gonçalves Funnicelli, Larissa Graciano Braga + 9 more
The rapid evolution of high-throughput technologies in biosciences has generated diverse and voluminous datasets, requiring bioscientists to develop data manipulation and analysis skills. Python, known for its versatility and powerful libraries, has become a crucial tool for managing these datasets. However, there is a…
Safoora Masoumi, Saeid Shahraz
Background Meta-analysis is a central method for quality evidence generation. In particular, meta-analysis is gaining speedy momentum in the growing world of quantitative information. There are several software applications to process and output expected results. Open-source software applications generating such…
Hongquan Bai, Xin Wang, Li Zhao
The rapid development of computers and technology affects modern daily life. Individuals in the digital age need to develop computational thinking (CT) skills. Existing studies have shown that programming teaching is conducive to cultivating students’ CT, and various learning models have different effects on the…
Anthony T. Bogetti, Jeremy M. G. Leung, John D. Russo, She Zhang + 11 more
We present six advanced tutorials instructing users in the best practices of using key new features and plugins/extensions of the WESTPA 2.0 software package, which consists of major upgrades for enabling applications of the weighted ensemble (WE) path sampling strategy to even larger systems and/or slower processes.…
Lucy Moctezuma, Lorena Benitez Rivera, Florentine van Nouhuijs, Faye Orcales + 4 more
This manuscript describes the development of a module that is part of a learning platform named “NIGMS Sandbox for Cloud-based Learning” https://github.com/NIGMS/NIGMS-Sandbox. The overall genesis of the Sandbox is described in the editorial NIGMS Sandbox at the beginning of this Supplement. This module delivers…
Matteo De Matola, Giorgio Arcara
Convolutional neural networks (CNNs) are a class of artificial neural networks (ANNs). Since the early 2010s, they have been widely adopted as models of primate vision and classifiers of neuroimaging data, becoming relevant for a wealth of neuroscientific fields. However, the majority of neuroscience researchers come…
Knut Rand, Ivar Grytten, Milena Pavlovic, Chakravarthi Kanduri + 1 more
Python is a popular and widespread programming language for scientific computing, in large part due to the powerful array programming library NumPy, which makes it easy to write clean, vectorized and efficient code for handling large datasets. A challenge with using array programming for biological data is that the…
Vincent Noël, Aurélien Naldi, Laurence Calzone, Loic Paulevé + 1 more
This tutorial provides stepwise instructions to install the 20 tools integrated in the CoLoMoTo software suite, to develop reproducible dynamical analyses of logical models of complex biological molecular networks. The tutorial specifically focuses on the analysis of a previously published model of the regulatory…
Sterling G. Baird, Taylor D. Sparks
Title: Summary Learn how to build a Closed-loop Spectroscopy Lab: Light-mixing demo (CLSLab:Light) to perform color matching via RGB LEDs and a light sensor for under 100 USD and less than an hour of setup. Our tutorial covers ordering parts, verifying prerequisites, software setup, sensor mounting, testing, and an…