MetaData
- Descriptive Metadata for Datasets DATS Modelfrom Biocaddie
- United States Heatlh Information KnowledgebaseThe United States Health Information Knowledgebase (USHIK) is a metadata registry of healthcare-related data standards funded and directed by the Agency for Healthcare Research and Quality (AHRQ) with management support in partnership with the Centers for Medicare & Medicaid Services.
eBooks
Applied Predictive Modeling by Call Number: eBook - SpringerLinkISBN: 9781461468493Publication Date: 2013-05-17
Data science and big data : an environment of computational intelligence by Call Number: eBook - SpringerLinkISBN: 9783319534749Publication Date: 2017
An Introduction to Statistical Learning by Call Number: eBook - SpringerLinkISBN: 9781461471387Publication Date: 2013-06-24
Strategies in Biomedical Data Science by Call Number: eBook - SafariISBN: 9781119255970Publication Date: 2016-12-27
Data Science Journals
Data Science Learning Tools
- ActiveWizards Case StudiesActiveWizards is a team of experienced data scientists and engineers focused on complex data projects. We provide high-quality data science, machine learning, data visualizations, and big data applications services.
- The CarpentriesThe Carpentries project comprises the Software Carpentry, Data Carpentry, and Library Carpentry communities of Instructors, Trainers, Maintainers, helpers, and supporters who share a mission to teach foundational computational and data science skills to researchers. We collaboratively develop openly-available lessons and deliver these lessons using evidence-based teaching practices. We focus on people conducting and supporting research.
- DataCampSign up for a free account to find interactive tools for learning data analysis and R at your own pace.
- Data Visualization for Data ScienceThis video explores how data visualization can help solve complex data science problems. It examines a number of visuals encountered in data science, such as bar charts, line charts, heat maps, histograms, scatter plots, wordclouds, and bubble charts. Also learn which libraries to use in Python and Julia to assist with data visualization.
- HSRICHealth Services Research Information Central from NIH links to a selective representation of health services resources for data.
Data Analysis Tools & Tutorials
-
Atlas.ti
A tutorial to get started with the computer assisted qualitative data analysis software (CAQDAS) program ATLAS.ti. -
Cytoscape
Cytoscape is an open source software platform for visualizing complex networks and integrating these with any type of attribute data. A lot of Apps are available for various kinds of problem domains, including bioinformatics, social network analysis, and semantic web. -
RStudio
RStudio develops free and open tools for R and enterprise-ready professional products for teams to scale and share work.
-
SAS
This guide provides a general overview of the SAS statistical software suite. -
SPSS Tutorial
This guide provides a general walkthrough of SPSS's basic features.
Coding & Development Tools
- Apache AirflowUse airflow to author workflows as directed acyclic graphs (DAGs) of tasks. The airflow scheduler executes your tasks on an array of workers while following the specified dependencies. Rich command line utilities make performing complex surgeries on DAGs a snap. The rich user interface makes it easy to visualize pipelines running in production, monitor progress, and troubleshoot issues when needed.
- BlackBlack makes code review faster by producing the smallest diffs possible. Blackened code looks the same regardless of the project you’re reading. Formatting becomes transparent after a while and you can focus on the content instead.
- CircleCICircleCI automatically runs your build in a clean container or virtual machine, allowing you to test every commit. CircleCI integrates with GitHub, GitHub Enterprise, and Bitbucket.
- Colaboratory (Google)Colaboratory, or "Colab" for short, allows you to write and execute Python in your browser, with
Zero configuration required
Free access to GPUs
Easy sharing - DVCOpen-source Version Control System for Machine Learning Projects
- Flake8Flake8 is a wrapper around these tools: PyFlakes; pycodestyle; Ned Batchelder’s McCabe script. Flake8 runs all the tools by launching the single flake8 command. It displays the warnings in a per-file, merged output.
- JupyterJupyter supports interactive data science and scientific computing across all programming languages. Jupyter Notebook and its flexible interface extends the notebook beyond code to visualization, multimedia, collaboration, and more.
- LuigiLuigi is a Python module that helps you build complex pipelines of batch jobs. It handles dependency resolution, workflow management, visualization etc. It also comes with Hadoop support built in.
- Pep 8 - Style Guide for Python CodeThis document gives coding conventions for the Python code comprising the standard library in the main Python distribution. Please see the companion informational PEP describing style guidelines for the C code in the C implementation of Python [1]. This document and PEP 257 (Docstring Conventions) were adapted from Guido's original Python Style Guide essay, with some additions from Barry's style guide [2].
- PyCharmPyCharm knows everything about your code. Rely on it for intelligent code completion, on-the-fly error checking and quick-fixes, easy project navigation, and much more.
- PytestPytest is a mature full-featured Python testing tool that helps you write better programs. The pytest framework makes it easy to write small tests, yet scales to support complex functional testing for applications and libraries.
- RunMyCodeTo allow researchers to quickly disseminate the results of their research. This will considerably increase the potential of citations of scientific papers. To provide a large community of users with the ability to use the latest scientific methods. This will speed up the process of converting scientific results into productive forces. To allow members of the academic community (researchers, editors, referees, etc.) to replicate scientific results and to demonstrate their robustness. This will increase transparency and trust in science.
- Travis CIThe simplest way to test and deploy your projects. Easily sync your GitHub projects with Travis CI and you'll be testing your code in minutes.
- Visual Studio CodeVisual Studio Code is a lightweight but powerful source code editor which runs on your desktop and is available for Windows, macOS and Linux. It comes with built-in support for JavaScript, TypeScript and Node.js and has a rich ecosystem of extensions for other languages (such as C++, C#, Java, Python, PHP, Go) and runtimes (such as .NET and Unity).
Data Resources from NIH and NLM
- Big Data to Knowledge Program ResourcesThe Big Data to Knowledge (BD2K) Centers of Excellence have developed new approaches, methods, software tools and related resources including publications, data standards, and educational resources to advance Big Data Science in their relevant biomedical area of focus.
- Data in Motion: New approaches to advancing scientific, engineering and medical progressThe National Academies of Sciences, Engineering, and Medicine's Board on Research Data and Information (BRDI) convened a public virtual workshop on October 14-15, 2020, to address how researchers in different domains are utilizing data that undergo repeated processing, often in real-time, to accelerate scientific discovery.
- Data Literacy & ManagementFrom Health Services Research Information Central (HSRIC) - The information on this page is intended to serve as an introduction to the topics of data science, data literacy, data management, data sharing, and research reproducibility. Though the emphasis is on health data, information from the broad data science community is included.
- NIH Data Sharing PolicyNIH has issued a new Final NIH Policy for Data Management and Sharing, which will require NIH funded researchers to prospectively submit a plan outlining how scientific data from their research will be managed and shared. On January 25, 2023, the new policy will come into effect and replace the 2003 NIH Data Sharing Policy currently in effect.
- NNLM RD3NNLM RD3: Resources for Data-Driven Discovery has been developed to foster learning and collaboration in data science. In order to support sharing, curating, and annotating biomedical data, NNLM RD3 serves as a resource for librarians, library students, information professionals, and interested individuals to learn about and discuss: library roles in data science; fundamentals of domain sciences; emerging trends in supporting biomedical research.
Clinical Data Research Networks
- HMO Research Networkfacilitates clinical research
- FDA Mini-Sentinel NetworkSafety surveillance of medications
- PCORnetClinical data research networks; common data model for subset of data
General Data Repositories
- CDC Data & StatisticsThe CDC provides data and statistics on a variety of health related areas.
- DataCiteDataCite provides DOI's for research data to help you locate, identify and cite data.
- EMBLEMBL-EBI makes the world’s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics.
- FigshareAllows users to upload any file format to be made visualisable in the browser so that figures, datasets, media, papers, posters, presentations and filesets can be disseminated.
- Illinois ExpertsIllinois Experts provides access to over 2,000 Illinois researcher profiles through an online, searchable portal, updated weekly from the Scopus abstract and citation database.
- Inter-University Consortium for Political and Social ResearchThe world's largest archive of computerized social science data.
- re3data.orgOnline directory of research data repositories. Browse by subject or alphabetically, or search by keyword.
Data and Statistics Guides
- Data & Statistics for Medicine and HealthMedicine and Health specific data sites.
- Finding Social Science DataThis library guide will give you a brief introduction to resources you can use to find social science data for your research. It will guide you in finding resources that list possible data sources, navigating ICPSR, and mining citations from other research articles to help you find data.
- Geographic Information Systems (GIS)This guide will help you get started with understanding what GIS is, the nature of geospatial data used in GIS, and how to get started using GIS for your research.
- Social Science, Health, and Education Data and Statistical SourcesThis guide will give you a brief introduction to resources you can use to find social science, health and educations statistics and data for your research.
- Statistics and Numeric DataThis guide provides links to data resources divided up by subject area.