Denotes licensed software available for installation on your desktop or laptop computer. Please contact [email protected] for more information.
Textual and Qualitative Analysis
Application | Linux (compute.cla) | Windows (CLA Research Desktops) | Notes | License |
---|---|---|---|---|
ABBYY Finereader | licensed for 5 named users, contact [email protected] to see if a license is available | |||
Acrobat Pro DC | University-wide license for faculty, staff, and student staff | |||
Atlas.ti | See our overview and comparison of Qualitative Analysis Software. | licensed for 10 concurrent users, free Atlas.ti account required, email us at [email protected] for the license key | ||
NVivo | See our overview and comparison of Qualitative Analysis Software. | licensed for CLA faculty, graduate students, and staff as well as CSOM Ph. D. candidates |
Statistical and Quantitative Analysis
Application | Linux (compute.cla) | Windows (CLA Research Desktops) | Notes | License |
---|---|---|---|---|
ArcGIS | University-wide license | |||
Gurobi Optimizer | Licensed for research and instructional use only. | |||
Julia | open source or free | |||
Matlab | licensed for CLA use
| |||
Python/Anaconda | open source or free | |||
R | open source or free | |||
R Studio | open source or free | |||
SAS | Windows: available via the Desktop CLA - SAS on apps.umn.edu Linux: only available on loki.cla.umn.edu | We purchase CPU-based licenses for Windows and Linux directly from SAS. It's available only on the listed servers. | ||
SPSS and AMOS | AMOS is Windows only | licensed for CLA use and only academic purposes | ||
Stata/IC |
Instructional use only and via AppsToGo; contact us to request access | licensed | ||
Stata/SE | licensed | |||
Stata/MP | Our license is for 8 cores and 2 concurrent users. Guide to Stata/MP multi-core performance. | licensed | ||
UCINET | licensed |
Neuroimaging Analysis
Application | Linux (compute.cla) | Windows (CLA Research Desktops) | Notes | License |
---|---|---|---|---|
AFNI (multiple versions) | open source or free | |||
ANTs | open source or free | |||
Freesurfer (multiple versions) | open source or free | |||
FSL (multiple versions) | open source or free | |||
MRIcron | open source or free | |||
SPM | open source or free | |||
SUMA | open source or free |
Genomic Analysis
Application | Linux (compute.cla) | Windows (CLA Research Desktops) | Notes | License |
---|---|---|---|---|
GCTA | open source or free | |||
PLINK | open source or free |
Programming and Other
Application | Linux (compute.cla) | Windows (CLA Research Desktops) | Notes | License |
---|---|---|---|---|
cuda | open source or free | |||
gcc | open source or free | |||
gmp | open source or free | |||
jdk | open source or free | |||
Kepler | open source or free | |||
LaTeX | open source or free | |||
mpfr | open source or free | |||
Open MPI | open source or free | |||
Pavlovia | web-based | web-based | licensed | |
Python/Anaconda | open source or free | |||
Python (Intel) | Optimized versions of NumPy, SciPy, scikit-learn, and 20 other modules | open source or free | ||
Singularity | open source or free | |||
Visual Studio Code (VS Code) | open source or free |
Software Descriptions
Data Analysis
Optical Character Recognition (OCR) software primarily used for converting scanned documents to computer-readable text.
The main function of Adobe Acrobat is creating, viewing, and editing PDF documents. It can import popular document and image formats and save them as PDF. It is also possible to import a scanner's output, a website, or the contents of the Windows clipboard.
ArcGIS is a geographic information system (GIS) for working with maps and geographic information. It is used for creating and using maps, compiling geographic data, analyzing mapped information, sharing and discovering geographic information, using maps and geographic information in a range of applications, and managing geographic information in a database.
The purpose of ATLAS.ti is to help researchers uncover and systematically analyze complex phenomena hidden in unstructured data (text, multimedia, geospatial). The program provides tools that let the user locate, code, and annotate findings in primary data material, to weigh and evaluate their importance, and to visualize the often complex relations between them.
The Gurobi Optimizer is a mathematical optimization solver for a wide variety of problem types, including: linear programming (LP), quadratic programming (QP), quadratically constrained programming (QCP), mixed integer linear programming (MILP), mixed-integer quadratic programming (MIQP), and mixed-integer quadratically constrained programming (MIQCP).
Julia is a high-level, high-performance dynamic programming language for numerical computing. It provides a sophisticated compiler, distributed parallel execution, numerical accuracy, and an extensive mathematical function library.
Mathematica is a computational software program used in many scientific, engineering, mathematical and computing fields, based on symbolic mathematics.
MATLAB (matrix laboratory) is a multi-paradigm numerical computing environment and fourth-generation programming language.
Nvivo is a qualitative data analysis computer software package produced by QSR International. It has been designed for qualitative researchers working with very rich text-based and/or multimedia information, where deep levels of analysis on small or large volumes of data are required.
Python is an interpreted high-level programming language for general-purpose programming
R is a free software environment for statistical computing and graphics.
RStudio IDE is a powerful and productive user interface for R
SAS is a software suite developed by SAS Institute for advanced analytics, multivariate analyses, business intelligence, data management, and predictive analytics.
The IBM SPSS® software platform offers advanced statistical analysis, a vast library of machine-learning algorithms, text analysis, open-source extensibility, integration with big data and seamless deployment into applications.
Stata is for data science needs. Obtain and manipulate data. Explore. Visualize. Model. Make inferences. Collect your results into reproducible reports. Stata/IC is for mid-size datasets (up to about 2000 variables, 2 billion observations)
Stata is for data science needs. Obtain and manipulate data. Explore. Visualize. Model. Make inferences. Collect your results into reproducible reports. Stata/SE is for large datasets (up to about 33,000 variables, 2 billion observations) to SE
The fastest version of Stata (can handle 120,000 variables, up to 20 billion observations)
UCINET 6 for Windows is a software package for the analysis of social network data.
Neuroimaging Analysis
AFNI (Analysis of Functional NeuroImages) is a leading software suite of C, Python, R programs and shell scripts primarily developed for the analysis and display of anatomical and functional MRI (FMRI) data.
ANTs extracts information from complex datasets that include imaging. ANTs is popularly considered a state-of-the-art medical image registration and segmentation toolkit.
An open source software suite for processing and analyzing (human) brain MRI images.
FSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data.
NIfTI viewer (Next generation of MRIcro)
The SPM software package has been designed for the analysis of brain imaging data sequences. The sequences can be a series of images from different cohorts, or time-series from the same subject. The current release is designed for the analysis of fMRI, PET, SPECT, EEG and MEG.
SUMA is a program that adds cortical surface based functional imaging analysis to the AFNI suite of programs. It allows viewing 3D cortical SUrface models, and MApping volumetric data onto them.
Genomic Analysis
GCTA (Genome-wide Complex Trait Analysis) was originally designed to estimate the proportion of phenotypic variance explained by all genome-wide SNPs for complex traits (the GREML method), and has subsequently extended for many other analyses to better understand the genetic architecture of complex traits.
PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.
Programming and Other
CUDA is a parallel computing platform and application programming interface (API) model created by Nvidia.[1] It allows software developers and software engineers to use a CUDA-enabled graphics processing unit (GPU) for general purpose processing.
The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Java, Ada, and Go, as well as libraries for these languages (libstdc++, libgcj,...).
GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers. There is no practical limit to the precision except the ones implied by the available memory in the machine GMP runs on. GMP has a rich set of functions, and the functions have a regular interface.
The JDK is a development environment for building applications, applets, and components using the Java programming language.
Kepler is designed to help scientists, analysts, and computer programmers create, execute, and share models and analyses across a broad range of scientific and engineering disciplines.
LaTeX is a high-quality typesetting system; it includes features designed for the production of technical and scientific documentation. LaTeX is the de facto standard for the communication and publication of scientific documents.
The main goal of MPFR is to provide a library for multiple-precision floating-point computation which is both efficient and has a well-defined semantics.
N/A
A version of Python distributed by Intel that has been optimized for faster performance with certain modules.
Pavlovia is a place for the wide community of researchers in the behavioural sciences to run, share, and explore experiments online.
Though it was originally conceived as a repository and launch platform for PsychoPy experiments, its open architecture makes it possible to support other open-source tools, such as jsPsych and lab.js.
Singularity is a free, cross-platform and open-source computer program that performs operating-system-level virtualization also known as containerization. One of the main uses of Singularity is to bring containers and reproducibility to scientific computing and the high-performance computing.
Visual Studio Code is a source-code editor by Microsoft that can be used with a variety of programming languages, including Java, JavaScript, Go, Node.js, Python, C++, C, Rust, Fortran, R, and Markdown.