summary_deviance {scGPS} | R Documentation |
n
bootstrapsthe training results from training
were written to
the object LSOLDA_dat
, the summary_devidance
summarises
deviance explained for n
bootstrap runs and also returns the best
deviance matrix for plotting, as well as the best matrix with Lasso genes
and coefficients
summary_deviance(object = NULL)
object |
is a list containing the training results from
|
a list
containing three elements, with a vector of percent
maximum deviance explained, a dataframe containg information for the full
deviance, and a dataframe containing gene names and coefficients of the best
model
Quan Nguyen, 2017-11-25
c_selectID<-1 day2 <- day_2_cardio_cell_sample mixedpop1 <-new_scGPS_object(ExpressionMatrix = day2$dat2_counts, GeneMetadata = day2$dat2geneInfo, CellMetadata = day2$dat2_clusters) day5 <- day_5_cardio_cell_sample mixedpop2 <-new_scGPS_object(ExpressionMatrix = day5$dat5_counts, GeneMetadata = day5$dat5geneInfo, CellMetadata = day5$dat5_clusters) genes <-training_gene_sample genes <-genes$Merged_unique LSOLDA_dat <- bootstrap_prediction(nboots = 2,mixedpop1 = mixedpop1, mixedpop2 = mixedpop2, genes=genes, c_selectID, listData =list(), cluster_mixedpop1 = colData(mixedpop1)[,1], cluster_mixedpop2=colData(mixedpop2)[,1]) summary_deviance(LSOLDA_dat)