Perl
Perl is a family of programming languages.
Perl is a family of programming languages.
HISAT2 is a graph-based alignment program that maps DNA and RNA sequencing reads to a population of human genomes.
TAU Commander is a user interface for the TAU Performance System, a set of tools for analyizing the performance of parallel programs.
Salmon is a tool for quantifying the expression of transcripts using RNA-seq data.
Apptainer/Singularity is a container system designed for use on High Performance Computing (HPC) systems. It allows users to run both Docker and Singularity containers.
From the Docker website: "A container image is a lightweight, stand-alone, executable package of a piece of software that includes everything needed to run it: code, runtime, system tools, system libraries, settings."
HTSlib is a C library used for reading and writing high-throughput sequencing data.
RELION (REgularised LIkelihood OptimisatioN) is a stand-alone computer program for the refinement of 3D reconstructions or 2D class averages in electron cryo-microscopy.
LAPACK (Linear Algebra PACKage) provides routines for solving systems of simultaneous linear equations, least-squares solutions of linear systems of equations, eigenvalue problems, and singular value problems.
A highly optimized implementation of LAPACK is available on all OSC clusters as part of the Intel Math Kernel Library (MKL). We recommend that you use MKL rather than building LAPACK for yourself. MKL is available to all OSC users.
FreeSurfer is a software package used to anaylze nueroimaging data.
The following versions of FreeSurfer are available on OSC clusters:
It is now possible to run Docker and Apptainer/Singularity containers on the Owens and Pitzer clusters at OSC. Single-node jobs are currently supported, including GPU jobs; MPI jobs are planned for the future.
From the Docker website: "A container image is a lightweight, stand-alone, executable package of a piece of software that includes everything needed to run it: code, runtime, system tools, system libraries, settings."