current improvements done on the colData as a standardization step:
set default value for optional colData fields
Arguments
- cd
DataFrame with colData
- se
a SummarizedExperiment object with drug-response data generate by gDR pipeline
- default_v
string with default value for optional columns in colData
Examples
mae <- get_synthetic_data("finalMAE_small.qs")
refine_coldata(SummarizedExperiment::colData(mae[[1]]), mae[[1]])
#> DataFrame with 10 rows and 4 columns
#> clid CellLineName Tissue
#> <character> <character> <character>
#> CL00011_cellline_BA_tissue_x_26 CL00011 cellline_BA tissue_x
#> CL00012_cellline_CA_tissue_x_30 CL00012 cellline_CA tissue_x
#> CL00013_cellline_DA_tissue_x_34 CL00013 cellline_DA tissue_x
#> CL00014_cellline_EA_tissue_x_38 CL00014 cellline_EA tissue_x
#> CL00015_cellline_FA_tissue_x_42 CL00015 cellline_FA tissue_x
#> CL00016_cellline_GB_tissue_y_46 CL00016 cellline_GB tissue_y
#> CL00017_cellline_HB_tissue_y_50 CL00017 cellline_HB tissue_y
#> CL00018_cellline_IB_tissue_y_54 CL00018 cellline_IB tissue_y
#> CL00019_cellline_JB_tissue_z_58 CL00019 cellline_JB tissue_z
#> CL00020_cellline_KB_tissue_z_62 CL00020 cellline_KB tissue_z
#> ReferenceDivisionTime
#> <numeric>
#> CL00011_cellline_BA_tissue_x_26 26
#> CL00012_cellline_CA_tissue_x_30 30
#> CL00013_cellline_DA_tissue_x_34 34
#> CL00014_cellline_EA_tissue_x_38 38
#> CL00015_cellline_FA_tissue_x_42 42
#> CL00016_cellline_GB_tissue_y_46 46
#> CL00017_cellline_HB_tissue_y_50 50
#> CL00018_cellline_IB_tissue_y_54 54
#> CL00019_cellline_JB_tissue_z_58 58
#> CL00020_cellline_KB_tissue_z_62 62