uk: resume function for UK algorithm punctuation

In FilipePintoReis/KARS_project: Histocompatibility functios for organ transplantation

resume function for UK algorithm punctuation

Description

Ordering of waitlisted candidates for a given donor and according to UK transplant algorithm.

Usage

uk(
  DRI = "D1",
  dA = c("1", "2"),
  dB = c("15", "44"),
  dDR = c("1", "4"),
  dABO = "O",
  donor.age = 65,
  data = candidates.uk,
  D1R1 = 1000,
  D1R2 = 700,
  D1R3 = 350,
  D1R4 = 0,
  D2R1 = 700,
  D2R2 = 1000,
  D2R3 = 500,
  D2R4 = 350,
  D3R1 = 350,
  D3R2 = 500,
  D3R3 = 1000,
  D3R4 = 700,
  D4R1 = 0,
  D4R2 = 350,
  D4R3 = 700,
  D4R4 = 1000,
  ptsDial = 1,
  a1 = 2300,
  a2 = 1500,
  b1 = 1200,
  b2 = 750,
  b3 = 400,
  m = 40,
  nn = 4.5,
  o = 4.7,
  mm1 = -100,
  mm23 = -150,
  mm46 = -250,
  pts = -1000,
  df.abs = cabs,
  n = 2,
  check.validity = TRUE
)

Arguments

DRI	Donor RisK Index group (env$valid.dris)
dA	donor's HLA-A typing.
dB	donor's HLA-B typing.
dDR	donor's HLA-DR typing.
dABO	A character value with ABO blood group (env$valid.blood.groups).
donor.age	A numeric value with donor's age.
data	A data frame containing demographics and medical information for a group of waitlisted transplant for UK transplant.
D1R1	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D1R2	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D1R3	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D1R4	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D2R1	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D2R2	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D2R3	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D2R4	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D3R1	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D3R2	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D3R3	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D3R4	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D4R1	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D4R2	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D4R3	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
D4R4	A numeric value (env$dirj.minimum - env$dirj.maximum) for the combination of indexes DiRj
ptsDial	A numeric value for the points corresponding to each month on dialysis
a1	A numeric value for HLA match and age combined formula: b1*cos(age / env$adulthood.age)+a1
a2	A numeric value for HLA match and age combined formula: b2*cos(age / env$adulthood.age)+a2
b1	A numeric value for HLA match and age combined formula: b1*cos(age / env$adulthood.age)+a1
b2	A numeric value for HLA match and age combined formula: b2*cos(age / env$adulthood.age)+a2
b3	A numeric value for HLA match and age combined formula: b3*sin(age / 50)
m	A numeric value for matchability formula: m * (1 + (MS / nn) ^ o)
nn	A numeric value for matchability formula: m * (1 + (MS / nn) ^ o)
o	A numeric value for matchability formula: m * (1 + (MS / nn) ^ o)
mm1	A numeric value to penalize 1 mm
mm23	A numeric value to penalize 2-3 mm
mm46	A numeric value to penalize 4-6 mm
pts	A negative value with penalization for B candidates
df.abs	A data frame with candidates' antibodies.
n	A positive integer to slice the first candidates.
check.validity	Logical to decide whether to validate input.

Examples

uk(DRI = 'D1', dA = c("1","2"), dB = c("15","44"), dDR = c("1","4"),
dABO = "O", donor.age = 65, data = candidates.uk,
D1R1 = 1000, D1R2 = 700, D1R3 = 350, D1R4 = 0,
D2R1 = 700, D2R2 = 1000, D2R3 = 500, D2R4 = 350,
D3R1 = 350, D3R2 = 500, D3R3 = 1000, D3R4 = 700,
D4R1 = 0, D4R2 = 350, D4R3 = 700, D4R4 = 1000,
ptsDial = 1,
a1 = 2300,  a2 = 1500, b1 = 1200, b2 = 750, b3 = 400,
m = 40, nn = 4.5, o = 4.7,
mm1 = -100, mm23 = -150, mm46 = -250,
pts = -1000,
df.abs = cabs, n = 2, check.validity = TRUE)

FilipePintoReis/KARS_project documentation built on July 11, 2022, 9:19 a.m.