Haploflow¶

Description¶

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.

Environment Variables¶

HPC_HAPLOFLOW_DIR - installation directory
HPC_HAPLOFLOW_BIN - executable directory

Citation¶

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) https://doi.org/10.1186/s13059-021-02426-8

Categories¶

biology, phylogenetics