Related papers: Open-source software for studying neural codes

Neural compression is the application of neural networks and other machine learning methods to data compression. Recent advances in statistical machine learning have opened up new possibilities for data compression, allowing compression…

Software is now a vital scientific instrument, providing the tools for data collection and analysis across disciplines from bioinformatics and computational physics, to the humanities. The software used in research is often home-grown and…

We present NeuralOperator, an open-source Python library for operator learning. Neural operators generalize neural networks to maps between function spaces instead of finite-dimensional Euclidean spaces. They can be trained and inferenced…

Applications integrating analysis components require a programmable interface which defines statistical operations independently of any programming language. By separating concerns of scientific computing from application and implementation…

We present a set of computing tools and techniques that every researcher can and should adopt. These recommendations synthesize inspiration from our own work, from the experiences of the thousands of people who have taken part in Software…

Code translation aims to convert code from one programming language to another automatically. It is motivated by the need for multi-language software development and legacy system migration. In recent years, neural code translation has…

Research at the intersection of machine learning, programming languages, and software engineering has recently taken important steps in proposing learnable probabilistic models of source code that exploit code's abundance of patterns. In…

As computer systems become more and more complex, software and tools lag more and more behind. This is especially true for scientific software that often demands high performance, and thus needs to take advantage of parallelisms, memory…

Popularity of the use of free software in the IT industry is much higher than its popular use in educational activities. Disadvantages of free software and problems of its implementation in the educational process is a limiting factor for…

Programming digital devices and developing software is an important professional qualification, which contributes to employment opportunities. Despite this fact, there is a remarkable shortage in suitable human resources. In this context,…

Scientific software-defined as computer programs, scripts, or code used in scientific research, data analysis, modeling, or simulation-has become central to modern research. However, there is limited research on the readability and…

There is no denying the fact that with the widespread usage of computers and the Internet in our daily lives, security of information and data has gained increased attention. Information stored in electronic form is more susceptible to…

Layers is an open source neural network toolkit aim at providing an easy way to implement modern neural networks. The main user target are students and to this end layers provides an easy scriptting language that can be early adopted. The…

The advancements in machine learning techniques have encouraged researchers to apply these techniques to a myriad of software engineering tasks that use source code analysis, such as testing and vulnerability detection. Such a large number…

Science depends heavily on reliable and easy-to-use software packages, such as mathematical libraries or data analysis tools. Developing such packages requires a lot of effort, which is too often avoided due to the lack of funding or…

Tensors (also commonly seen as multi-linear operators or as multi-dimensional arrays) are ubiquitous in scientific computing and in data science, and so are the software efforts for tensor operations. Particularly in recent years, we have…

We present OpenML and mldata, open science platforms that provides easy access to machine learning data, software and results to encourage further study and application. They go beyond the more traditional repositories for data sets and…

Writing complex computer programs to study scientific problems requires careful planning and an in-depth knowledge of programming languages and tools. In this chapter the importance of using the right tool for the right problem is…

We compare the open source model of software development to peer review in academia.

Neuroscience models commonly have a high number of degrees of freedom and only specific regions within the parameter space are able to produce dynamics of interest. This makes the development of tools and strategies to efficiently find…