as.alpha | as.alpha |
as.alpha.in.range | as.alpha.in.range |
as.beta | as.beta |
as.beta.in.range | as.beta.in.range |
as.loglik.progression | as.loglik.progression |
as.loglik.progression.in.range | as.loglik.progression.in.range |
as.mean.squared.error | as.mean.squared.error |
as.starting.beta | as.starting.beta |
as.starting.beta.in.range | as.starting.beta.in.range |
background | germline replication error |
cv_example | example of results obtained with the function nmf.LassoCV on the counts input from Nik-Zainal, Serena, et al. (2016). |
evaluate.lambda.range | evaluate.lambda.range |
import.counts.data | import.counts.data |
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 |
nmf.LassoCV | nmf.LassoCV |
nmf.LassoK | nmf.LassoK |
nmf_LassoK_example | example of results obtained with the function nmf.LassoK on the counts input from Nik-Zainal, Serena, et al. (2016). |
patient.plot | patient.plot |
patients | point mutations for 560 breast tumors |
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 |
starting.betas.estimation | starting.betas.estimation |
starting_betas_example | example of results obtained with the function starting.betas.estimation on the counts input from Nik-Zainal, Serena, et al. (2016). |