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kmc website  

KMC is a disk-based programm for counting k-mers from (possibly gzipped) FASTQ/FASTA files. The homepage of the KMC project is

For accessing k-mers stored in database produced by KMC there is an API (kmc_api directory). Note that for KMC versions 0.x and 1.x dababase format differs from produced by KMC version 2.x. From version 2.2.0 API is unified for both formats and all new features/bug fixes are present only for 2.x branch (standalone API for older KMC version is not longer under development, so new version of API should be used even for databases produced by older KMC version).

Environment Modules

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

System Variables

  • HPC_KMC_DIR - installation directory
  • HPC_KMC_BIN - executable directory