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Creates genomic builds, calls SNPs, detects indels, and counts reads from data generated from one or more sequencing runs.

Illumina's Consensus Assessment of Sequence and Variation (CASAVA) software captures summary information for resequencing and counting studies and places the data in a compact structure for visualization within GenomeStudio Software or publicly available analysis tools. CASAVA can create genomic builds, call SNPs, detects indels, and count reads from data generated from one or more runs of the Genome Analyzer across a broad range of sequencing applications.

CASAVA now supports Nextera dual indexing.

Environment Modules

Run module spider casava to find out what environment modules are available for this application.

System Variables

  • HPC_CASAVA_DIR - installation directory
  • HPC_CASAVA_BIN - executable directory
  • HPC_CASAVA_DOC - documentation directory