GenomeScope2¶

Description¶

GenomeScope 2.0 applies classical insights from combinatorial theory to establish a detailed mathematical model of how k-mer frequencies will be distributed in heterozygous and polyploid genomes.

Environment Modules¶

Run module spider genomescope2 to find out what environment modules are available for this application.

Environment Variables¶

HPC_GENOMESCOPE2_DIR - installation directory
HPC_GENOMESCOPE2_BIN - executable directory

Citation¶

If you publish research that uses GenomeScope2 you have to cite it as follows:

Ranallo-Benavidez, T.R., Jaron, K.S. & Schatz, M.C. GenomeScope 2.0 and Smudgeplot for reference-free profiling of polyploid genomes. Nature Communications 11, 1432 (2020).

Vurture, GW, Sedlazeck, FJ, Nattestad, M, Underwood, CJ, Fang, H, Gurtowski, J, Schatz, MC (2017) Bioinformatics doi

Categories¶

phylogenetics