The StructuralVariantUtil package is to provide utility functions for structural variant (SV) study, including estimating calling performance, parsing VCF, integrating results from different callers and cohort-level spectrum analysis.
This package has also included all commands to integrate somatic SV calls and discover prostate cancer related subgroups and SV hotspots, described in the following publication:
Gong, T., Jaratlerdsiri, W., Jiang, J. et al. Genome-wide interrogation of structural variation reveals novel African-specific prostate cancer oncogenic drivers. Genome Med 14, 100 (2022). https://doi.org/10.1186/s13073-022-01096-w
You can install it from GitHub with:
# install.packages("devtools")
devtools::install_github("tgong1/StructuralVariantUtil")