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R/tumor_response_examples.R

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+#' Example Tumor Response Datasets
+#'
+#' Example datasets demonstrating different scenarios for tumor response analysis
+#'
+#' @format A list containing 4 data frames:
+#' \describe{
+#'   \item{raw_with_time}{Raw tumor measurements with time points (20 obs. of 3 variables)}
+#'   \item{raw_no_time}{Raw tumor measurements without time (10 obs. of 2 variables)}
+#'   \item{percent_with_time}{Pre-calculated response percentages with time (20 obs. of 3 variables)}
+#'   \item{percent_no_time}{Pre-calculated response percentages without time (10 obs. of 2 variables)}
+#' }
+#' @details
+#' Each dataset represents a different scenario:
+#' \itemize{
+#'   \item raw_with_time: Longitudinal raw measurements
+#'   \item raw_no_time: Single timepoint raw measurements
+#'   \item percent_with_time: Longitudinal percentage changes
+#'   \item percent_no_time: Single timepoint percentage changes
+#' }
+#'
+#' @examples
+#' data(tumor_response_examples)
+#' head(tumor_response_examples$raw_with_time)
+#' head(tumor_response_examples$percent_no_time)
+"tumor_response_examples"

data/oncology_response_data.csv

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+"PatientID","ResponseValue"
+"PT0001",63.5
+"PT0002",-100
+"PT0003",-20.5
+"PT0004",55.1
+"PT0005",-60.5
+"PT0006",-93.6
+"PT0007",123.8
+"PT0008",-24.4
+"PT0009",-59.9
+"PT0010",94.3
+"PT0011",-54.8
+"PT0012",112.9
+"PT0013",-100
+"PT0014",-23.8
+"PT0015",-74.8
+"PT0016",-100
+"PT0017",-100
+"PT0018",17.2
+"PT0019",-62.5
+"PT0020",-86.2
+"PT0021",133
+"PT0022",-19.7
+"PT0023",-100
+"PT0024",-100
+"PT0025",16.2
+"PT0026",-37.4
+"PT0027",-23.1
+"PT0028",122.1
+"PT0029",-7.3
+"PT0030",37.6
+"PT0031",135.1
+"PT0032",63.8
+"PT0033",-14
+"PT0034",-68.8
+"PT0035",-6
+"PT0036",67.8
+"PT0037",-6.7
+"PT0038",-27.4
+"PT0039",44.4
+"PT0040",-31.1
+"PT0041",-13.6
+"PT0042",-21.4
+"PT0043",-5.6
+"PT0044",-100
+"PT0045",-29
+"PT0046",-100
+"PT0047",64.1
+"PT0048",NA
+"PT0049",-100
+"PT0050",-38.6
+"PT0051",6.5
+"PT0052",-14.2
+"PT0053",-10.7
+"PT0054",63.2
+"PT0055",-25.4
+"PT0056",118.4
+"PT0057",-55.8
+"PT0058",-22.7
+"PT0059",-28.3
+"PT0060",-63.6
+"PT0061",NA
+"PT0062",-100
+"PT0063",27.9
+"PT0064",-73.7
+"PT0065",134.2
+"PT0066",16.4
+"PT0067",-10.4
+"PT0068",NA
+"PT0069",-74.2
+"PT0070",-14.6
+"PT0071",-24.5
+"PT0072",18.9
+"PT0073",-5.2
+"PT0074",NA
+"PT0075",-19.4
+"PT0076",141
+"PT0077",-15.1
+"PT0078",2.6
+"PT0079",-36.4
+"PT0080",19.4
+"PT0081",-67
+"PT0082",-10.3
+"PT0083",-22.8
+"PT0084",-76.8
+"PT0085",93.4
+"PT0086",-34.2
+"PT0087",-12.1
+"PT0088",12
+"PT0089",6.1
+"PT0090",NA
+"PT0091",-34.9
+"PT0092",-29.8
+"PT0093",-21.9
+"PT0094",-100
+"PT0095",-100
+"PT0096",71.9
+"PT0097",3.7
+"PT0098",-63.8
+"PT0099",89.4
+"PT0100",-74.4
+"PT0101",-42
+"PT0102",-15.3
+"PT0103",-9.5
+"PT0104",-25.4
+"PT0105",-100
+"PT0106",-100
+"PT0107",123.8
+"PT0108",66.8
+"PT0109",-92.4
+"PT0110",NA
+"PT0111",-33
+"PT0112",68.5
+"PT0113",124.8
+"PT0114",-35.8
+"PT0115",-66.4
+"PT0116",NA
+"PT0117",-26.2
+"PT0118",-21.7
+"PT0119",-46.9
+"PT0120",81.8
+"PT0121",4.2
+"PT0122",17.5
+"PT0123",-62.7
+"PT0124",-64.4
+"PT0125",92.8
+"PT0126",2.6
+"PT0127",56.3
+"PT0128",-100
+"PT0129",18.9
+"PT0130",103.7
+"PT0131",95.7
+"PT0132",-55
+"PT0133",-34.9
+"PT0134",-100
+"PT0135",70.7
+"PT0136",-76.3
+"PT0137",31.8
+"PT0138",-13.9
+"PT0139",118.6
+"PT0140",-88.2
+"PT0141",5.5
+"PT0142",18.2
+"PT0143",-81.9
+"PT0144",34.1
+"PT0145",27.2
+"PT0146",127.9
+"PT0147",-1
+"PT0148",-100
+"PT0149",-6.5
+"PT0150",-11.7
+"PT0151",56.4
+"PT0152",0
+"PT0153",126.4
+"PT0154",-25
+"PT0155",-32.4
+"PT0156",41.9
+"PT0157",-25.6
+"PT0158",13
+"PT0159",-3.8
+"PT0160",-52.3
+"PT0161",NA
+"PT0162",NA
+"PT0163",-48.1
+"PT0164",-5.5
+"PT0165",-32.3
+"PT0166",15.3
+"PT0167",-59.2
+"PT0168",-26.1
+"PT0169",-28.8
+"PT0170",-4.3
+"PT0171",102
+"PT0172",-9
+"PT0173",13.9
+"PT0174",-88
+"PT0175",18.9
+"PT0176",-16.7
+"PT0177",31
+"PT0178",-69.9
+"PT0179",36.2
+"PT0180",95.6
+"PT0181",51.2
+"PT0182",113.8
+"PT0183",-22.6
+"PT0184",-22.3
+"PT0185",53.7
+"PT0186",NA
+"PT0187",75.4
+"PT0188",27.8
+"PT0189",-24.2
+"PT0190",-5.9
+"PT0191",18.9
+"PT0192",125.5
+"PT0193",-2.9
+"PT0194",-26.3
+"PT0195",-6.7
+"PT0196",-13
+"PT0197",-50.2
+"PT0198",-4.3
+"PT0199",86.9
+"PT0200",90.9
+"PT0201",78.2
+"PT0202",-89.5
+"PT0203",140.9
+"PT0204",-29.1
+"PT0205",-9.3
+"PT0206",-18.6
+"PT0207",-100
+"PT0208",-88.5
+"PT0209",-5.9
+"PT0210",2.5
+"PT0211",-35.1
+"PT0212",-71.4
+"PT0213",12.7
+"PT0214",-14.9
+"PT0215",-64.7
+"PT0216",38.6
+"PT0217",NA
+"PT0218",3.3
+"PT0219",-91
+"PT0220",76
+"PT0221",-69.2
+"PT0222",4.8
+"PT0223",-52.1
+"PT0224",-100
+"PT0225",-9.6
+"PT0226",59.9
+"PT0227",-17.2
+"PT0228",3.6
+"PT0229",14.6
+"PT0230",12.2
+"PT0231",NA
+"PT0232",-26
+"PT0233",11.4
+"PT0234",-26.3
+"PT0235",-100
+"PT0236",34.9
+"PT0237",2
+"PT0238",61.7
+"PT0239",-82.7
+"PT0240",-10.3
+"PT0241",13
+"PT0242",-72.4
+"PT0243",-29.8
+"PT0244",15.5
+"PT0245",-33.1
+"PT0246",-63.1
+"PT0247",-6.8
+"PT0248",-0.2
+"PT0249",-36.1
+"PT0250",-100

data/percent_no_time.csv

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+"PatientID","Response"
+"PT1",-80
+"PT2",-30
+"PT3",15
+"PT4",35
+"PT5",-100
+"PT6",-45
+"PT7",-25
+"PT8",10
+"PT9",25
+"PT10",-65

data/percent_with_time.csv

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+"PatientID","Time","Response"
+"PT1",0,0
+"PT1",2,-40
+"PT1",4,-60
+"PT1",6,-80
+"PT2",0,0
+"PT2",2,-25
+"PT2",4,-35
+"PT2",6,-30
+"PT3",0,0
+"PT3",2,-10
+"PT3",4,5
+"PT3",6,15
+"PT4",0,0
+"PT4",2,10
+"PT4",4,25
+"PT4",6,35
+"PT5",0,0
+"PT5",2,-60
+"PT5",4,-90
+"PT5",6,-100

data/raw_no_time.csv

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+"PatientID","Measurement"
+"PT1",50
+"PT2",40
+"PT3",30
+"PT4",45
+"PT5",25
+"PT6",45
+"PT7",35
+"PT8",28
+"PT9",55
+"PT10",20

data/raw_with_time.csv

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+"PatientID","Time","Measurement"
+"PT1",0,50
+"PT1",2,30
+"PT1",4,20
+"PT1",6,10
+"PT2",0,40
+"PT2",2,30
+"PT2",4,25
+"PT2",6,28
+"PT3",0,30
+"PT3",2,28
+"PT3",4,32
+"PT3",6,33
+"PT4",0,45
+"PT4",2,50
+"PT4",4,60
+"PT4",6,70
+"PT5",0,25
+"PT5",2,10
+"PT5",4,5
+"PT5",6,0

data/tumor_response_data.csv

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+"","PatientID","Time","Response"
+"1","PT1",0,0
+"2","PT1",2,-45
+"3","PT1",4,-80
+"4","PT1",6,-95
+"5","PT1",8,-100
+"6","PT2",0,0
+"7","PT2",2,-20
+"8","PT2",4,-35
+"9","PT2",6,-40
+"10","PT2",8,-38
+"11","PT3",0,0
+"12","PT3",2,-10
+"13","PT3",4,-15
+"14","PT3",6,-18
+"15","PT3",8,-15
+"16","PT4",0,0
+"17","PT4",2,5
+"18","PT4",4,8
+"19","PT4",6,12
+"20","PT4",8,15
+"21","PT5",0,0
+"22","PT5",2,15
+"23","PT5",4,25
+"24","PT5",6,35
+"25","PT5",8,45
+"26","PT6",0,0
+"27","PT6",2,5
+"28","PT6",4,-25
+"29","PT6",6,-40
+"30","PT6",8,-42
+"31","PT7",0,0
+"32","PT7",2,-30
+"33","PT7",4,-35
+"34","PT7",6,-20
+"35","PT7",8,15
+"36","PT8",0,0
+"37","PT8",2,30
+"38","PT8",4,50
+"39","PT8",6,70
+"40","PT8",8,85
+"41","PT9",0,0
+"42","PT9",2,-5
+"43","PT9",4,0
+"44","PT9",6,22
+"45","PT9",8,35
+"46","PT10",0,0
+"47","PT10",2,-20
+"48","PT10",4,-15
+"49","PT10",6,-10
+"50","PT10",8,-5