Looking for desktop software? This catalog covers the module system on the HPC clusters. DoIT licenses additional programs for faculty and staff, including SAS and SPSS, for on-campus use, off-campus download, and through the Virtual SINC Site. See the DoIT software catalog.
Category
Availability shown is for SeaWulf. Module availability and versions on NVwulf and ClinWulf vary. Run module avail <name> on your cluster, or ask HPC support.
| Software | Category | Available on |
|---|---|---|
| GCC A popular open-source compiler for C, C++, and other languages. | Compilers | SeaWulf |
| Intel oneAPI A unified programming model with support for Intel CPUs, GPUs, and FPGAs. | Compilers | SeaWulf |
| AOCC AMD's Optimizing C Compiler, designed for high performance on AMD architectures. | Compilers | SeaWulf |
| NVHPC NVIDIA's HPC compiler suite optimized for performance on NVIDIA GPUs. | Compilers | SeaWulf |
| LLVM A collection of modular and reusable compiler and toolchain technologies. | Compilers | SeaWulf |
| Intel MPI A high-performance, production-quality MPI implementation for Intel architectures. | MPI implementations | SeaWulf |
| MVAPICH A high-performance MPI implementation for modern interconnects. | MPI implementations | SeaWulf |
| OpenMPI An open-source MPI implementation that supports a wide range of protocols. | MPI implementations | SeaWulf |
| mpi4py A Python interface for MPI-based parallel computing. | MPI implementations | SeaWulf |
| Bowtie2 A fast, memory-efficient tool for aligning sequencing reads to long reference sequences. | Bioinformatics | SeaWulf |
| bioconvert A tool for converting bioinformatics data between various formats. | Bioinformatics | SeaWulf |
| diffexp A tool for differential expression analysis in bioinformatics datasets. | Bioinformatics | SeaWulf |
| genome_assembly Software tools for assembling genomes from short sequencing reads. | Bioinformatics | SeaWulf |
| genome_annotation Tools for annotating genomes with genes, regulatory elements, and other features. | Bioinformatics | SeaWulf |
| GWAS Tools for performing Genome-Wide Association Studies to identify genetic variants. | Bioinformatics | SeaWulf |
| hts A set of tools for working with high-throughput sequencing data. | Bioinformatics | SeaWulf |
| metagenomics Tools for analyzing metagenomic data to study microbial communities. | Bioinformatics | SeaWulf |
| popgen Tools for population genetics analysis, including allele frequency and diversity. | Bioinformatics | SeaWulf |
| phylo Software for constructing and analyzing phylogenetic trees. | Bioinformatics | SeaWulf |
| singlecell Tools for analyzing single-cell RNA-seq and other single-cell omics datasets. | Bioinformatics | SeaWulf |
| structural-variant Tools for detecting and analyzing structural variations in genomes. | Bioinformatics | SeaWulf |
| QIIME A powerful software package for analyzing and visualizing microbiome data. | Bioinformatics | SeaWulf |
| Freesurfer A suite for the analysis and visualization of structural and functional neuroimaging data. | Neuroimaging | SeaWulf |
| FSL A comprehensive library of analysis tools for FMRI, MRI, and DTI data. | Neuroimaging | SeaWulf |
| NAMD A parallel molecular dynamics code for high-performance simulation of large biomolecular systems. | Molecular dynamics & chemistry | SeaWulf |
| GROMACS A versatile, efficient package for performing molecular dynamics simulations. | Molecular dynamics & chemistry | SeaWulf |
| LAMMPS A molecular dynamics simulator widely used for materials science and molecular simulation. | Molecular dynamics & chemistry | SeaWulf |
| AmberMD A suite of biomolecular simulation programs focusing on molecular dynamics and free energy. | Molecular dynamics & chemistry | SeaWulf |
| VASP A software package for atomic-scale materials modeling using quantum mechanical simulations. | Molecular dynamics & chemistry | SeaWulf |
| MATLAB A high-performance language for technical computing, data analysis, and algorithm development. | Mathematics & statistics | SeaWulf |
| Mathematica A computational software system used across scientific, engineering, and mathematical fields. | Mathematics & statistics | SeaWulf |
| MPFR A C library for multiple-precision floating-point computation with correct rounding. | Mathematics & statistics | SeaWulf |
| PETSc A suite of data structures and routines for scalable solution of PDE-modeled problems. | Mathematics & statistics | SeaWulf |
| OpenBLAS An open-source implementation of the BLAS library for linear algebra operations. | Mathematics & statistics | SeaWulf |
| Intel MKL A set of highly optimized routines for scientific, engineering, and financial applications. | Mathematics & statistics | SeaWulf |
| AOCL AMD's collection of optimized math libraries for scientific workloads on AMD CPUs. | Mathematics & statistics | SeaWulf |
| TensorFlow An open-source machine learning library for deep learning and AI applications. | Machine learning & AI | SeaWulf |
| PyTorch An open-source machine learning framework used for computer vision and NLP. | Machine learning & AI | SeaWulf |
| Scikit-learn A Python module for machine learning built on NumPy, SciPy, and matplotlib. | Machine learning & AI | SeaWulf |
| Ollama An AI tool for building and deploying natural language processing models. | Machine learning & AI | SeaWulf |
| ParaView An open-source data analysis and visualization application for scientific data. | Visualization & analysis | SeaWulf |
| VMD A molecular visualization program for displaying and analyzing large biomolecular systems. | Visualization & analysis | SeaWulf |
| Matplotlib A Python plotting library for static, animated, and interactive visualizations. | Visualization & analysis | SeaWulf |
| Jupyter A web-based interactive computing environment supporting many languages, especially Python. | Visualization & analysis | SeaWulf |
| HDF5 A file format and set of tools for managing large and complex data sets. | Data processing | SeaWulf |
| NetCDF Libraries and machine-independent formats for array-oriented scientific data. | Data processing | SeaWulf |
| FFTW3 A C library for computing discrete Fourier transforms in one or more dimensions. | Data processing | SeaWulf |
| Anaconda A free, open-source distribution of Python and R for scientific computing. | Development | SeaWulf |
| Git A free, open-source version control system for tracking changes in source code. | Development | SeaWulf |
| CMake An open-source build system generator for managing the build process of projects. | Development | SeaWulf |
| Singularity An open-source container platform for executing applications in isolated environments. | Development | SeaWulf |
| GNU Parallel A shell tool for executing jobs in parallel using one or more computers. | Development | SeaWulf |
| Valgrind An instrumentation framework for building dynamic analysis tools for debugging and profiling. | Monitoring & debugging | SeaWulf |
| Linaro Forge A platform providing tools for optimizing and debugging HPC and ARM-based systems. | Monitoring & debugging | SeaWulf |
| htop An interactive process viewer for Unix systems with a user-friendly interface. | Monitoring & debugging | SeaWulf |
| Python A high-level programming language widely used for general-purpose and AI applications. | Programming languages | SeaWulf |
| R A programming language and environment for statistical computing and graphics. | Programming languages | SeaWulf |