background              germline replication error
background2             COSMIC replication error
cv_example              example of results obtained with the function
                        nmf.LassoCV on the counts input from
                        Nik-Zainal, Serena, et al. (2016).
import.trinucleotides.counts
                        import.trinucleotides.counts
imported_data           example of imported data from Nik-Zainal,
                        Serena, et al. (2016).
lambdaRangeAlphaEvaluation
                        lambdaRangeAlphaEvaluation
lambdaRangeBetaEvaluation
                        lambdaRangeBetaEvaluation
lambda_range_example    example of results obtained with the function
                        evaluate.lambda.range on the counts input from
                        Nik-Zainal, Serena, et al. (2016).
mutation_categories     trinucleotides mutation categories
nmfLasso                nmfLasso
nmfLassoBootstrap       nmfLassoBootstrap
nmfLassoCV              nmfLassoCV
nmf_LassoK_example      example of results obtained with the function
                        nmf.LassoK on the counts input from Nik-Zainal,
                        Serena, et al. (2016).
patients                point mutations for 560 breast tumors
patients.plot           patients.plot
sigAssignmentCV         sigAssignmentCV
sigAssignmentEvaluation
                        sigAssignmentEvaluation
sigAssignmentLasso      sigAssignmentLasso
signatures.plot         signatures.plot
ssm560_reduced          a reduced version of the point mutations for
                        560 breast tumors in the format compatible with
                        the import function
startingBetaEstimation
                        startingBetaEstimation
starting_betas_example
                        example of results obtained with the function
                        starting.betas.estimation on the counts input
                        from Nik-Zainal, Serena, et al. (2016).
