CGATools

Description

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The Complete Genomics Analysis Tools (cgatools) is an open source project to provide tools for downstream analysis of Complete Genomics data. The focus is to provide command line utilities, but a C++ API is available as well. The general areas of functionality include genome comparison, format conversion, and reference tools. Template:App Location

Available versions

• 1.5.0.31

Running the application using modules

To use cgatools with the environment modules system at HPC the following commands are available:

Get module information for cgatools:

$module spider cgatools

Load the default application module:

$module load cgatools

The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:

• HPC_CGATOOLS_DIR - directory where cgatools is located.
• HPC_CGATOOLS_BIN - executable directory
• HPC_CGATOOLS_INC - includes directory
• HPC_CGATOOLS_DOC - documentation directory

Citation

If you publish research that uses cgatools you have to cite it as follows: R. Drmanac, et. al. Science 327(5961), 78. [DOI: 10.1126/science.1181498]