Relion - Cryo-EM structure determination software
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RELION (REgularised LIkelihood OptimisatioN, pronounced rely-on) is a stand-alone software package developed by Sjors Scheres' group at the MRC Laboratory of Molecular Biology. It employs an empirical Bayesian approach for electron cryo-microscopy (cryo-EM) structure determination, specifically for refining multiple 3D reconstructions or 2D class averages.
Useful R Packages for Data Science and Statistics
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This Udacity article listed the most frequently used R packages for data science and statistics. For each package, the article provided the link to its official documentation. It will be a great start point if you want to start your data science journey in R.
Recommended Libraries for Cyberinfrastructure Users Developing Jupyter Notebooks
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This repository contains information about Jupyter Widgets and how they can be used to develop interactive workflows, data dashboards, and web applications that can be run on HPC systems and science gateways. Easy to build web applications are not only useful for scientists. They can also be used by software engineers and system admins who want to quickly create tools tools for file management and more!
R for Data Science
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R for Data Science is a comprehensive resource for individuals looking to harness the power of the R programming language for data analysis, visualization, and statistical modeling. Whether you're a beginner or an experienced data scientist, this guide will help you unlock the full potential of R in the realm of data science.
How the Little Jupyter Notebook Became a Web App: Managing Increasing Complexity with nbdev
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A tutorial entitled "How the Little Jupyter Notebook Became a Web App: Managing Increasing Complexity with nbdev" presented at SciPy 2023 in Austin, TX. This tutorial is hosted in a series of Jupyter Notebooks which can be accessed in the click of a button using Binder. See the README for more information.
Online Master's in Business Analytics Program Guide - TechGuide
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A degree in business analytics looks different in today’s world than it did a decade ago. In its most current application, business analytics uses modern data science and capabilities in machine learning (ML). The magic comes into play when these are leveraged for strategic planning.
Samtools Documentation
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Samtools is a suite of programs for interacting with high-throughput sequencing data, especially in the SAM/BAM format. It offers various utilities for processing, analyzing, and managing sequence data generated from next-generation sequencing (NGS) experiments. Samtools is widely used in bioinformatics and genomics research for tasks such as read alignment, variant calling, and data manipulation.
A survey on datasets for fairness-aware machine learning
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The research paper provides an overview of various datasets that have been used to study fairness in machine learning. It discusses the characteristics of these datasets, such as their size, diversity, and the fairness-related challenges they address. The paper also examines the different domains and applications covered by these datasets.
Master's in Data Science Program Guide - TechGuide
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A master’s degree in data science helps prepare professionals to take the next career step. This article will focus primarily on data science, a graduate degree in this field, and a data scientist or data analyst career. With many employers preferring a master’s degree in data science for those seeking to fill roles as data scientists or analysts, we will discuss the data science master’s degree in detail.
Optimizing Research Workflows - A Documentation of Snakemake
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Snakemake is a powerful and versatile workflow management system that simplifies the creation, execution, and management of data analysis pipelines. It uses a user-friendly, Python-based language to define workflows, making it particularly valuable for automating and reproducibly managing complex computational tasks in research and data analysis.
Fairness and Machine Learning
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The "Fairness and Machine Learning" book offers a rigorous exploration of fairness in ML and is suitable for researchers, practitioners, and anyone interested in understanding the complexities and implications of fairness in machine learning.
Weka
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Weka is a collection of machine learning algorithms for data mining tasks. It contains tools for data preparation, classification, regression, clustering, association rules mining, and visualization.
Research Software Engineering Training Materials
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An ongoing collection of RSE training material, workshops, and resources. We are compiling this list as a starting point for future activities. We are especially seeking material that goes beyond basic research computing competency (e.g. what The Carpentries does so well) and is general enough to span multiple domains. Specific tools and technologies used only in one domain, or applicable to only one subset of computing (i.e. HPC) are typically too narrowly focused. When in doubt, submit it to be included or reach out and we’d be happy to discuss.
Introduction to P4-DPDK
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Network packet processing faces significant performance challenges due to kernel overheads. These issues have become more pronounced with the rapid growth of network traffic. To address these challenges, the Data Plane Development Kit (DPDK) was developed. DPDK bypasses the kernel and operates directly in user space, offering significant improvements in performance and latency for packet processing tasks. However, DPDK's steep learning curve presents a barrier to entry for developers and network administrators. In recent years, P4 has emerged as a language specifically designed for expressing packet processing data paths. Building on this development, P4-DPDK has been introduced as a new technology that bridges P4 and DPDK. It allows developers to create P4 code which is then translated into a DPDK pipeline, combining the expressiveness of P4 with the performance benefits of DPDK. This lab series offers a hands-on experience on the basics of P4-DPDK.
HPCwire
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HPCwire is a prominent news and information source for the HPC community. Their website offers articles, analysis, and reports on HPC technologies, applications, and industry trends.
Awesome Jupyter Widgets (for building interactive scientific workflows or science gateway tools)
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A curated list of awesome Jupyter widget packages and projects for building interactive visualizations for Python code