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cgatools website  

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.

Required Modules

modules documentation


  • cgatools
  • HPC_CGATOOLS_BIN - executable directory
  • HPC_CGATOOLS_INC - includes directory
  • HPC_CGATOOLS_DOC - documentation directory

System Variables

  • HPC_{{#uppercase:cgatools}}_DIR - installation directory


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]