to_list {GSgalgoR} | R Documentation |
The current function transforms a galgo.Obj
to a list
to_list(output)
output |
An object of class |
The current function restructurates a galgo.Obj
to a more
easy to understand an use list
. This output is particularly useful
if one wants to select a given solution and use its outputs in a new
classifier. The output of type list
has a length equals to the
number of solutions obtained by the galgo
algorithm.
Basically this output is a list of lists, where each element of the output
is named after the solution's name (solution.n
, where n
is
the number assigned to that solution), and inside of it, it has all the
constituents for that given solution with the following structure:
output$solution.n$Genes: A vector of the features included in the solution
output$solution.n$k: The number of partitions found in that solution
output$solution.n$SC.Fit: The average silhouette coefficient of the partitions found
output$solution.n$Surv.Fit: The survival fitness value
output$solution.n$Rank: The solution rank
CrowD: The solution crowding distance related to the rest of the solutions
Martin E Guerrero-Gimenez, mguerrero@mendoza-conicet.gob.ar
# load example dataset library(breastCancerTRANSBIG) data(transbig) Train <- transbig rm(transbig) expression <- Biobase::exprs(Train) clinical <- Biobase::pData(Train) OS <- survival::Surv(time = clinical$t.rfs, event = clinical$e.rfs) # We will use a reduced dataset for the example expression <- expression[sample(1:nrow(expression), 100), ] # Now we scale the expression matrix expression <- t(scale(t(expression))) # Run galgo output <- GSgalgoR::galgo(generations = 5, population = 15, prob_matrix = expression, OS = OS) outputDF <- to_dataframe(output) outputList <- to_list(output)