SparseSignatures

Documentation for package ‘SparseSignatures’ version 1.6.0

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).