Guides @ UF: Research Data Management at UF: Tools

Galaxy at UF

UF researchers have access to an instance of Galaxy at Research Computing - a web-based framework for accessible, reproducible and transparent biological computing. Galaxy has arisen as the most popular framework for providing biological researchers access to the tools they need for the analysis of their data.

Scheduled training sessions on Galaxy are listed here. Please contact Oleksandr Moskalenko or Matt Gitzendanner for further questions on Galaxy.

DMP at UF

For individual or group consultation/training on how to prepare your Data Management Plan, please contact me or your liaison librarian/subject specialist.

The University of Florida is a partner institution of the DMPTool. It allows you to create ready-to-use data management plans for specific funding agencies. Use your gatorlink and password to login and use this tool.

Secure File Sharing Service at UF

File-Express allows any individuals with UF Gatorlink accounts to securely exchange files that may be too large, or otherwise blocked by traditional e-mail methods. Using a secure server and the Gatorlink Authentication system, users can easily share files with members of both the UF and Non-UF community.

Maximum single file size: 5GB

Default expiration length: 1 day(s)

Maximum expiration length: 5 day(s)

UF Institutional Respository

The Institutional Repository at the University of Florida is the digital archive for the intellectual output of the University of Florida community, and includes research, news, outreach, and educational materials. Logon to myUFDC

General Data Management Tools

REDCap
This web-based data capture tool is available for free for any research project at UF. Initially designed for clinical data capture, REDCap allows you to create a database and related forms quickly and output data into Excel and common statistical packages (SPSS, SAS, Stata, R).
LabArchives
Electronic Lab Notebooks (also known as an ELNs) can be used to store, organize, share, and publish laboratory data. UF provides access to the ELN, LabArchives.
Jupyter Notebook
This open-source web application allows you to create and share documents that contain live code, equations, visualizations and narrative text. Notebooks can be shared with others using email, Dropbox, GitHub and the Jupyter Notebook Viewer.
Open Science Framework
This web-based tool supports the scientist's workflow including components for documenting and archiving studies, sharing materials, increasing transparency, and registering hypotheses and other materials.
Open Refine
Open Refine is a freely-available tool for working with messy data. In a local, spreadsheet-like interface, Open Refine allows you to use filters and facets to clean messy data, to transform lists into tables, and to merge datasets.
NLM Scrubber
NLM-Scrubber is a new, freely available, HIPAA compliant, clinical text de-identification tool designed and developed at the National Library of Medicine.
DataCite
DataCite helps you cite research data by providing persistent identifiers and suggested citation styles. Also included are other tools to find, access, and re-use data.

Data Analysis Tools

IBM SPSS Statistics allows you to explore your data, formulate hypotheses, make statistical analysis, to clarify relationships between variables, create clusters, identify trends and make predictions. Access to this software is available on all Academic Technology computers (including the public computers in all UF libraries).

SPSS free training workshops may be provided by e-Learning Support Services. Those interested should contact Dr. Silva-Lugo.

SAS Statistics software provides a wide range of analytical capabilities, from traditional analysis of variance to exact methods and statistical visualization techniques. SAS also offers an interactive matrix programming language and exploratory data analysis with integration to R. Access to this software is available on all Academic Technology computers (including the public computers in all UF libraries).

Additional statistical consulting is available through the Statistics Department, the IFAS Consulting Unit, or the Biostatistical Consulting Lab.

For a full list of software available on Academic Technology computers (including those int he libraries), see: https://labs.at.ufl.edu/about-at-labs/computer-software/

Data Visualization Tools

Plotly
Plotly is a web-based tool for easily creating and sharing graphs and other data visualizations. Use their online spreadsheets or the following programming languages: MATLAB, Python, R, JSON, Julia, Javascript.
Tableau
This is a suite of tools for interactive data visualization. Available through UF Apps.
Sci2
Developed out of Indiana University, the Science of Science (Sci2) Tool is designed for temporal, geospatial, topical, and network analysis and visualization. Free registration is required.
Gephi
This tool is an interactive visualization and exploration platform for all kinds of networks and complex systems, dynamic and hierarchical graphs.
ArcGIS
Faculty/department licensing of this commonly used tool for geospatial data is available through the UF GeoPlan Center. ArcGIS is available for free to students through UF Apps: http://info.apps.ufl.edu/
Visualization Tools Guide
This guide links to a number of additional data visualization tools and software, primarily for scientific applications.
Data Visualization Checklist
From Evergreen Data, this checklist covers text, arrangement, color, lines, and overall aspects of visualization.