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BWA

Oakley, Owens

BWA is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM.

Availability and Restrictions

The following versions of BWA are available on OSC clusters:

Oakley, Owens

Bowtie1 is an ultrafast, memory-efficient short read aligner. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human genome (2.9 GB for paired-end).

Availability and Restrictions

The following versions of Bowtie1 are available on OSC clusters:

Oakley, Owens

Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome. While each individual tool is designed to do a relatively simple task, quite sophisticated analyses can be conducted by combining multiple bedtools operations on the UNIX command line.

Oakley

NWChem aims to provide its users with computational chemistry tools that are scalable both in their ability to treat large scientific computational chemistry problems efficiently, and in their use of available parallel computing resources from high-performance parallel supercomputers to conventional workstation clusters.

Availability and Restrictions

The following versions of NWChem are available on OSC clusters:

Owens

For more information about citations of OSC, visit https://www.osc.edu/citation.

To cite Owens, please use the following Archival Resource Key:

ark:/19495/hpc6h5b1

Please adjust this citation to fit the citation style guidelines required.

Oakley

ABINIT is a package whose main program allows one to find the total energy, charge density and electronic structure of systems made of electrons and nuclei (molecules and periodic solids) within Density Functional Theory (DFT), using pseudopotentials and a planewave or wavelet basis.

Oakley, Owens

"Condo model" refers to an arrangment when a client leases one or more compute nodes for the shared cluster while OSC provides all infrastructure, as well as maintenance and services. BMI's Condo on the Oakley Cluster is leased by the Biomedical Informatics Institute at The Ohio State University. This condo is a temporary "bridge" condo to server the community needs until the Owens Cluster is available.

Glenn, Oakley, Owens, Ruby

Introduction

Owens, Oakley, Ruby

An eligible principal investigator (PI) heads a project account and can authorize/remove user accounts under the project account (please check our Allocations and Accounts documentation for more details). This document shows you how to identify users on a project account and check the status of each user. 

Glenn

Glenn Cluster Retired: March 24, 2016

The Glenn Cluster supercomputer has been retired from service to make way for a much more powerful new system. As an OSC client, the removal of the cluster will result in work being added to the heavy workload being handled by Oakley or Ruby, potentially impacting you.

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