summary_prediction_lasso {scGPS} | R Documentation

## get percent deviance explained for Lasso model, from `n` bootstraps

### Description

the training results from `training` were written to the object `LSOLDA_dat`, the `summary_prediction` summarises prediction for `n` bootstrap runs

### Usage

    summary_prediction_lasso(LSOLDA_dat = NULL, nPredSubpop = NULL)

### Arguments

`LSOLDA_dat` | is a list containing the training results from `training`
`nPredSubpop` | is the number of subpopulations in the target mixed population

### Value

a dataframe containg information for the Lasso prediction results, each column contains prediction results for all subpopulations from each bootstrap run

### Examples

    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 = 1,mixedpop1 = mixedpop1,
        mixedpop2 = mixedpop2, genes=genes, c_selectID, listData =list(),
        cluster_mixedpop1 = colData(mixedpop1)[,1],
        cluster_mixedpop2=colData(mixedpop2)[,1])
    summary_prediction_lasso(LSOLDA_dat=LSOLDA_dat, nPredSubpop=4)

[Package scGPS version 1.2.0 Index]