12 papers · ranked by Valyu relevance
Paul Hendricks, Woo-Young Ahn
The easyml (easy machine learning) package lowers the barrier to entry to machine learning and is ideal for undergraduate/graduate students, and practitioners who want to quickly apply machine learning algorithms to their research without having to worry about the best practices of implementing each algorithm. The…
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…
Stephen R. Piccolo, Terry J. Lee, Erica Suh, Kimball Hill
Classification algorithms assign observations to groups based on patterns in data. The machine-learning community have developed myriad classification algorithms, which are employed in diverse life-science research domains. When applying such algorithms, researchers face the challenge of deciding which algorithm(s) to…
Paulo Lyra, Junhao Qiu, Khai Dang, Alyssa Pybus + 6 more
Machine learning is increasingly central to biomedical research, but using machine learning well often requires substantial computational expertise and methodological care to produce high-quality results. To make machine learning tools more accessible to biomedical researchers while supporting best-practice approaches…
Vlastimil Martinek, Andrea Gariboldi, Dimosthenis Tzimotoudis, Mark Galea + 7 more
Extracting knowledge from biomedical data is crucial for advancing our understanding of biological systems and developing novel therapeutics. The quantity, quality, and resolution of biomedical data constantly evolves, requiring the automation of biomedical machine learning (ML). Existing Automated ML tools lack…
Huifang Ma, Zhicheng Ji
Large language models have shown remarkable capabilities in algorithm design, but their effectiveness in solving data science challenges remains poorly understood. We conducted a classroom experiment in which graduate students used large language models (LLMs) to solve biomedical data science challenges on Kaggle.…
Akshay Akshay, Mitali Katoch, Navid Shekarchizadeh, Masoud Abedi + 5 more
Machine learning (ML) has emerged as a vital asset for researchers to analyze and extract valuable information from complex datasets. However, developing an effective and robust ML pipeline can present a real challenge, demanding considerable time and effort, thereby impeding research progress. Existing tools in this…
Qiang Gu, Anup Kumar, Simon Bray, Allison Creason + 4 more
Supervised machine learning, where the goal is to predict labels of new instances by training on labeled data, has become an essential tool in biomedical data analysis. To make supervised machine learning more accessible to biomedical scientists, we have developed Galaxy-ML, a platform that enables scientists to…
Jorge Guerra Pires
Introduction: deep learning emerged in 2012 as one of the most important machine learning technologies, reducing image identification error from 25% to 5%. This article has two goals: 1) to demonstrate to the general public the ease of building state-of-the-art machine learning models without coding expertise; 2) to…
Aws Ismail Abu Eid, Salameh A. Mjlae, Suzie Yaseen Rababa’h, Ahmed Hammad + 1 more
This comprehensive benchmarking study explores the performance of three prominent machine learning libraries: PyTorch, Keras with TensorFlow backend, and Scikit-learn with the same criteria, software, and hardware. The evaluation encompasses two diverse datasets, “student performance” and “College Attending Plan…
Chris S Magnano, Fangzhou Mu, Rosemary S Russ, Milica Cvetkovic + 2 more
The increasing prevalence and importance of machine learning in biological research has created a need for machine learning training resources tailored towards biological researchers. However, existing resources are often inaccessible, infeasible, or inappropriate for biologists because they require significant…
Lopez Rene, Makita Mario, Ortega Laura, Lal Avantika + 1 more
Machine learning is a complex but essential technology in genomics data analysis and its popularity has increased the rate of new methodological approaches published but this raises the question of how models should be benchmarked and validated. Bench-ML is a generalizable and easy to use web interface for benchmarking…