ARC¶
ARC is a pipeline which facilitates iterative, reference guided 'de nono' assemblies with the intent of reducing time in analysis and increasing accuracy of results by only considering those reads which should assemble together and reducing reference bias as compared to mapping based approaches. The software is designed to work in situations where a whole-genome assembly is not the objective, but rather when the researcher wishes to assemble discreet 'targets' contained within next-generation shotgun sequence data. ARC reduces the complexity of the traditionally difficult problem of assembly by subsetting the reads into small, manageable pieces which can then be assembled quickly and efficiently. Applications include those in which the researcher wishes to de novo assemble specific content and a set of semi-similar reference targets is available to initialize the assembly process.
Environment Modules¶
Run module spider ARC to find out what environment modules are available for this application.
System Variables¶
- HPC_ARC_DIR - installation directory
- HPC_ARC_BIN - executable directory
- HPC_ARC_CONF - sample configuration file directory
- HPC_ARC_TEST - test data directory