Related papers: Open-source software for studying neural codes
Most scientists need software to perform their research (Barker et al., 2020; Carver et al., 2022; Hettrick, 2014; Hettrick et al., 2014; Switters and Osimo, 2019), and neuroscientists are no exception. Whether we work with reaction times,…
In recent years, deep learning revolutionized machine learning and its applications, producing results comparable to human experts in several domains, including neuroscience. Each year, hundreds of scientific publications present…
The main goal of this document is to help the research community to understand the basic concepts of software distribution: Free software, Open source software, licenses. This document also includes a procedure for research software and…
Many software development problems can be addressed by program analysis tools, which traditionally are based on precise, logical reasoning and heuristics to ensure that the tools are practical. Recent work has shown tremendous success…
Almost all research work in computational neuroscience involves software. As researchers try to understand ever more complex systems, there is a continual need for software with new capabilities. Because of the wide range of questions being…
Open source software is becoming crucial in the design and testing of quantum algorithms. Many of the tools are backed by major commercial vendors with the goal to make it easier to develop quantum software: this mirrors how well-funded…
Undergraduate programs in science and engineering include at least one course in basic programming, but seldom presented in a contextualized format, where computing is a tool for thinking and learning in the discipline. We have created a…
In many academic disciplines, software is created during the research process or for a research purpose. The crucial role of software for research is increasingly acknowledged. The application of software engineering to research software…
Open science describes the movement of making any research artefact available to the public and includes, but is not limited to, open access, open data, and open source. While open science is becoming generally accepted as a norm in other…
Neuroscience is undergoing a period of rapid experimental progress and expansion. New mathematical tools, previously unknown in the neuroscience community, are now being used to tackle fundamental questions and analyze emerging data sets.…
In computational science and in computer science, research software is a central asset for research. Computational science is the application of computer science and software engineering principles to solving scientific problems, whereas…
Deep neural networks have been increasingly used in software engineering and program analysis tasks. They usually take a program and make some predictions about it, e.g., bug prediction. We call these models neural program analyzers. The…
The use of several open source scientific packages in the Schr\"odinger Materials Science Suite will be discussed. A typical workflow for materials discovery will be described, discussing how open source packages have been incorporated at…
Open source software is free software that provides user freedom to use, replicate, modify, and distribute for any purpose. The quality of well-known open source software is very high and they are used by big companies such as IBM, Google…
The reproducibility of scientific research has become a point of critical concern. We argue that openness and transparency are critical for reproducibility, and we outline an ecosystem for open and transparent science that has emerged…
Software developed helps world a better place ranging from system software, open source, application software and so on. Software engineering does have neural network models applied to code suggestion, bug report summarizing and so on to…
Fully immersive virtual reality (VR) has the potential to improve neurosurgical planning. For example, it may offer 3D visualizations of relevant anatomical structures with complex shapes, such as blood vessels and tumors. However, there is…
Neural MMO is a computationally accessible research platform that combines large agent populations, long time horizons, open-ended tasks, and modular game systems. Existing environments feature subsets of these properties, but Neural MMO is…
Here practical aspects of conducting research via computer simulations are discussed. The following issues are addressed: software engineering, object-oriented software development, programming style, macros, make files, scripts, libraries,…
Software is the key crosscutting technology that enables advances in mathematics, computer science, and domain-specific science and engineering to achieve robust simulations and analysis for science, engineering, and other research fields.…