Jump to navigation Jump to search


qcat website  

qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files. It accepts basecalled FASTQ files and splits the reads into into separate FASTQ files based on their barcode. Qcat makes the demultiplexing algorithms used in albacore/guppy and EPI2ME available to be used locally with FASTQ files. Currently qcat implements the EPI2ME algorithm. In the next version we will add the albacore/guppy algorithm.

Environment Modules

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

System Variables

  • HPC_QCAT_DIR - installation directory
  • HPC_QCAT_BIN - executable directory