R: A Driver Discovery Tool for Cancer Whole Genomes

# A Driver Discovery Tool for Cancer Whole Genomes

## Documentation for package ‘ActiveDriverWGS’ version 1.2.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

.fix_all_results | fix_all_results verifies that the results table has the correct format and p-values
.get_3n_context_of_mutations | This function finds the tri-nucleotide context of mutations
.get_obs_exp | Calculates the number of expected mutations based
.get_signf_results | Returns significant results
.make_mut_signatures | Makes mutational signatures
.split_coord_fragments_in_BED | Splits a BED12 file into separate regions
ActiveDriverWGS | ActiveDriverWGS is a driver discovery tool for simple somatic mutations in cancer whole genomes
ADWGS_test | ADWGS_test executes the statistical test for ActiveDriverWGS
cancer_genes | cancer_genes
cancer_gene_sites | post-translational modification sites found in cancer genes
cll_mutations | CLL mutations
format_muts | This function filters hypermutated samples and returns the formatted mutations with the appropriate trinucleotide context
prepare_elements_from_BED12 | Prepares element coords from a BED12 file
prepare_elements_from_BED4 | Prepares element coords from a BED4 file