Themisto

Description

themisto website

Themisto is an external memory construction of a compressed colored de-bruijn graph of order k supporting fast pseudo-alignment, see https://www.helsinki.fi/en/researchgroups/genome-scale-algorithmics/themisto.

Environment Modules

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

Environment Variables

• HPC_THEMISTO_DIR - installation directory
• HPC_THEMISTO_BIN - executable directory

Citation

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

Mäklin, T., Kallonen, T., Alanko, J., Samuelsen, Ø., Hegstad, K., Mäkinen, V., Corander, J., Heinz, E., & Honkela, A. (2021). Bacterial genomic epidemiology with mixed samples. Microbial genomics, 7(11), 000691. https://doi.org/10.1099/mgen.0.000691

Categories

genomics, alignment