Function to obtain data from gDRtestData and prepare for unit tests
Examples
get_testdata_codilution()
#> $drug_names
#> [1] "drug_002" "drug_003" "drug_004"
#>
#> $cell_line_names
#> [1] "cellline_AA" "cellline_BA"
#>
#> $dt
#> Drug Name Cell Line Name
#> <char> <char>
#> 1: drug_002 cellline_AA
#> 2: drug_003 cellline_AA
#> 3: drug_004 cellline_AA
#> 4: drug_002 cellline_BA
#> 5: drug_003 cellline_BA
#> 6: drug_004 cellline_BA
#> rId
#> <char>
#> 1: G00002_drug_002_moa_A_G00001_drug_001_moa_A_72_0.0005
#> 2: G00003_drug_003_moa_A_G00001_drug_001_moa_A_72_0.0005
#> 3: G00004_drug_004_moa_A_G00001_drug_001_moa_A_72_0.0005
#> 4: G00002_drug_002_moa_A_G00001_drug_001_moa_A_72_0.0005
#> 5: G00003_drug_003_moa_A_G00001_drug_001_moa_A_72_0.0005
#> 6: G00004_drug_004_moa_A_G00001_drug_001_moa_A_72_0.0005
#> cId EC50 x_AOC h RV GEC50 GR Max ec50
#> <char> <num> <num> <lgcl> <num> <num> <lgcl>
#> 1: CL00010_cellline_AA_tissue_x_22 0.9720 0.0280 NA Inf 0.9720 NA
#> 2: CL00010_cellline_AA_tissue_x_22 0.9700 0.0300 NA Inf 0.9700 NA
#> 3: CL00010_cellline_AA_tissue_x_22 0.9720 0.0280 NA Inf 0.9720 NA
#> 4: CL00011_cellline_BA_tissue_x_26 0.9885 0.0115 NA Inf 0.9885 NA
#> 5: CL00011_cellline_BA_tissue_x_26 0.9935 0.0065 NA Inf 0.9935 NA
#> 6: CL00011_cellline_BA_tissue_x_26 0.9985 0.0015 NA Inf 0.9985 NA
#> GR Inf GR 0 h GR E Inf p_value rss Concentration N_conc E0
#> <lgcl> <lgcl> <lgcl> <lgcl> <lgcl> <lgcl> <num> <int> <num>
#> 1: NA NA NA NA NA NA -3.30103 1 0
#> 2: NA NA NA NA NA NA -3.30103 1 0
#> 3: NA NA NA NA NA NA -3.30103 1 0
#> 4: NA NA NA NA NA NA -3.30103 1 0
#> 5: NA NA NA NA NA NA -3.30103 1 0
#> 6: NA NA NA NA NA NA -3.30103 1 0
#> fit_type normalization_type fit_source Gnumber Drug MOA
#> <char> <char> <char> <char> <char>
#> 1: DRCTooFewPointsToFit RV gDR G00002 moa_A
#> 2: DRCTooFewPointsToFit RV gDR G00003 moa_A
#> 3: DRCTooFewPointsToFit RV gDR G00004 moa_A
#> 4: DRCTooFewPointsToFit RV gDR G00002 moa_A
#> 5: DRCTooFewPointsToFit RV gDR G00003 moa_A
#> 6: DRCTooFewPointsToFit RV gDR G00004 moa_A
#> Gnumber_2 Drug Name 2 Drug MOA2 Duration Concentration 2 clid Tissue
#> <char> <char> <char> <num> <num> <char> <char>
#> 1: G00001 drug_001 moa_A 72 5e-04 CL00010 tissue_x
#> 2: G00001 drug_001 moa_A 72 5e-04 CL00010 tissue_x
#> 3: G00001 drug_001 moa_A 72 5e-04 CL00010 tissue_x
#> 4: G00001 drug_001 moa_A 72 5e-04 CL00011 tissue_x
#> 5: G00001 drug_001 moa_A 72 5e-04 CL00011 tissue_x
#> 6: G00001 drug_001 moa_A 72 5e-04 CL00011 tissue_x
#> ReferenceDivisionTime GR50 IC50 E Max GR value
#> <num> <num> <num> <num> <num>
#> 1: 22 0.9720 0.9720 0.9720 0.9720
#> 2: 22 0.9700 0.9700 0.9700 0.9700
#> 3: 22 0.9720 0.9720 0.9720 0.9720
#> 4: 26 0.9885 0.9885 0.9885 0.9885
#> 5: 26 0.9935 0.9935 0.9935 0.9935
#> 6: 26 0.9985 0.9985 0.9985 0.9985
#>
#> $raw_data
#> rId
#> <char>
#> 1: G00002_drug_002_moa_A_G00001_drug_001_moa_A_72_0.0005
#> 2: G00002_drug_002_moa_A_G00001_drug_001_moa_A_72_0.0005
#> 3: G00002_drug_002_moa_A_G00001_drug_001_moa_A_72_0.00158113883008419
#> 4: G00002_drug_002_moa_A_G00001_drug_001_moa_A_72_0.00158113883008419
#> 5: G00002_drug_002_moa_A_G00001_drug_001_moa_A_72_0.005
#> ---
#> 104: G00004_drug_004_moa_A_G00001_drug_001_moa_A_72_0.5
#> 105: G00004_drug_004_moa_A_G00001_drug_001_moa_A_72_1.58113883008419
#> 106: G00004_drug_004_moa_A_G00001_drug_001_moa_A_72_1.58113883008419
#> 107: G00004_drug_004_moa_A_G00001_drug_001_moa_A_72_5
#> 108: G00004_drug_004_moa_A_G00001_drug_001_moa_A_72_5
#> cId x_mean x_AOC x_AOC_range xc50 x_max
#> <char> <num> <num> <lgcl> <num> <num>
#> 1: CL00010_cellline_AA_tissue_x_22 0.9720 0.0280 NA Inf 0.9720
#> 2: CL00010_cellline_AA_tissue_x_22 0.9827 0.0173 NA Inf 0.9827
#> 3: CL00010_cellline_AA_tissue_x_22 0.8084 0.1916 NA Inf 0.8084
#> 4: CL00010_cellline_AA_tissue_x_22 0.8742 0.1258 NA Inf 0.8742
#> 5: CL00010_cellline_AA_tissue_x_22 0.5138 0.4862 NA Inf 0.5138
#> ---
#> 104: CL00011_cellline_BA_tissue_x_26 0.5872 0.4128 NA Inf 0.5872
#> 105: CL00011_cellline_BA_tissue_x_26 0.5272 0.4728 NA Inf 0.5272
#> 106: CL00011_cellline_BA_tissue_x_26 0.5872 0.4128 NA Inf 0.5872
#> 107: CL00011_cellline_BA_tissue_x_26 0.5272 0.4728 NA Inf 0.5272
#> 108: CL00011_cellline_BA_tissue_x_26 0.5872 0.4128 NA Inf 0.5872
#> ec50 x_inf x_0 h r2 p_value rss maxlog10Concentration
#> <lgcl> <lgcl> <lgcl> <lgcl> <lgcl> <lgcl> <lgcl> <num>
#> 1: NA NA NA NA NA NA NA -3.30103
#> 2: NA NA NA NA NA NA NA -3.30103
#> 3: NA NA NA NA NA NA NA -2.80103
#> 4: NA NA NA NA NA NA NA -2.80103
#> 5: NA NA NA NA NA NA NA -2.30103
#> ---
#> 104: NA NA NA NA NA NA NA -0.30103
#> 105: NA NA NA NA NA NA NA 0.19897
#> 106: NA NA NA NA NA NA NA 0.19897
#> 107: NA NA NA NA NA NA NA 0.69897
#> 108: NA NA NA NA NA NA NA 0.69897
#> N_conc x_sd_avg fit_type normalization_type fit_source Gnumber
#> <int> <num> <char> <char> <char> <char>
#> 1: 1 0 DRCTooFewPointsToFit RV gDR G00002
#> 2: 1 0 DRCTooFewPointsToFit GR gDR G00002
#> 3: 1 0 DRCTooFewPointsToFit RV gDR G00002
#> 4: 1 0 DRCTooFewPointsToFit GR gDR G00002
#> 5: 1 0 DRCTooFewPointsToFit RV gDR G00002
#> ---
#> 104: 1 0 DRCTooFewPointsToFit GR gDR G00004
#> 105: 1 0 DRCTooFewPointsToFit RV gDR G00004
#> 106: 1 0 DRCTooFewPointsToFit GR gDR G00004
#> 107: 1 0 DRCTooFewPointsToFit RV gDR G00004
#> 108: 1 0 DRCTooFewPointsToFit GR gDR G00004
#> DrugName drug_moa Gnumber_2 DrugName_2 drug_moa_2 Duration Concentration_2
#> <char> <char> <char> <char> <char> <num> <num>
#> 1: drug_002 moa_A G00001 drug_001 moa_A 72 0.000500000
#> 2: drug_002 moa_A G00001 drug_001 moa_A 72 0.000500000
#> 3: drug_002 moa_A G00001 drug_001 moa_A 72 0.001581139
#> 4: drug_002 moa_A G00001 drug_001 moa_A 72 0.001581139
#> 5: drug_002 moa_A G00001 drug_001 moa_A 72 0.005000000
#> ---
#> 104: drug_004 moa_A G00001 drug_001 moa_A 72 0.500000000
#> 105: drug_004 moa_A G00001 drug_001 moa_A 72 1.581138830
#> 106: drug_004 moa_A G00001 drug_001 moa_A 72 1.581138830
#> 107: drug_004 moa_A G00001 drug_001 moa_A 72 5.000000000
#> 108: drug_004 moa_A G00001 drug_001 moa_A 72 5.000000000
#> clid CellLineName Tissue ReferenceDivisionTime
#> <char> <char> <char> <num>
#> 1: CL00010 cellline_AA tissue_x 22
#> 2: CL00010 cellline_AA tissue_x 22
#> 3: CL00010 cellline_AA tissue_x 22
#> 4: CL00010 cellline_AA tissue_x 22
#> 5: CL00010 cellline_AA tissue_x 22
#> ---
#> 104: CL00011 cellline_BA tissue_x 26
#> 105: CL00011 cellline_BA tissue_x 26
#> 106: CL00011 cellline_BA tissue_x 26
#> 107: CL00011 cellline_BA tissue_x 26
#> 108: CL00011 cellline_BA tissue_x 26
#>