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Haploflow website  

Haploflow is a strain-aware viral genome assembler for short read sequence data. It uses a flow algorithm on a deBruijn graph data structure to resolve viral strains.

Environment Modules

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

System Variables

  • HPC_HAPLOFLOW_DIR - installation directory
  • HPC_HAPLOFLOW_BIN - executable directory


If you publish research that uses Haploflow you have to cite it as follows:

Fritz, A., Bremges, A., Deng, ZL. et al. Haploflow: strain-resolved de novo assembly of viral genomes. Genome Biol 22, 212 (2021)