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TAU Commander is a user interface for the TAU Performance System, a set of tools for analyizing the performance of parallel programs. 

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Salmon is a tool for quantifying the expression of transcripts using RNA-seq data.

Kallisto is an RNA-seq quantification program. It quantifies abundances of transcripts from RNA-seq data and uses psedoalignment to determine the compatibility of reads with targets, without needing alignment.

Singularity is a container system designed for use on High Performance Computing (HPC) systems. It allows users to run both Docker and Singularity containers.


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. 

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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.

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The BLAS (Basic Linear Algebra Subprograms) are routines that provide standard building blocks for performing basic vector and matrix operations.

Availability and Restrictions


A highly optimized implementation of the BLAS is available on all OSC clusters as part of the Intel Math Kernel Library (MKL). We recommend that you use MKL rather than building the BLAS for yourself. MKL is available to all OSC users.

FreeSurfer is a software package used to anaylze nueroimaging data.

Availability & Restrictions


The following versions of FreeSurfer are available on OSC clusters: