# devtools::install_github("jeremyrcoyle/sl3")
# devtools::install_github("jlstiles/SDE_transport")
library("SDEtransportsim")
library("parallel")
library("doParallel")
#Set up data generating process:
# data(example_dgp)
# data = data_example
truth = list(
f_W = function(n) {
W1 = rnorm(n)
W2 = rnorm(n)
data.frame(W1=W1, W2=W2)
}
,f_S = function(W) {
with(W, plogis(-.37*W1 + W2-.17))
}
,f_A = function(S,W) {
rep(.5, length(S))
}
,f_Z = function(A,S,W) {
df = as.data.frame(cbind(W, A = A))
with(df, plogis(.3*S*(.4*W1 - W2 + A) +.4*W1 -.6*W2 + 1*A -.5*S + .3))
}
,f_M = function(Z,W,S) {
df = as.data.frame(cbind(Z=Z, W, S))
with(df, plogis(.4*S*(1*W1 +.6*W2 - 1*Z) + .41*W1 +.16*W2 - 3*Z + .51*S + 1.6))
}
,f_Y = function(M,Z,W) {
df = as.data.frame(cbind(M = M, Z = Z, W))
with(df, plogis(W2 + W1 - Z + 2*M - .4))
}
)
truth_NT = list(
f_W = function(n) {
W1 = rnorm(n)
W2 = rnorm(n)
data.frame(W1=W1, W2=W2)
}
,f_A = function(W) {
if (is.vector(W)) nn = length(W) else nn = nrow(W)
rep(.5, nn)
}
,f_Z = function(A,W) {
df = as.data.frame(cbind(W, A = A))
with(df, plogis(.4*W1 -.6*W2 + 1*A + .3))
}
,f_M = function(Z,W) {
df = as.data.frame(cbind(Z=Z, W))
with(df, plogis(.41*W1 +.16*W2 - 3*Z+ 1.6))
}
,f_Y = function(M,Z,W) {
df = as.data.frame(cbind(M = M, Z = Z, W))
with(df, plogis(W2 + W1 - Z + 2*M - .4))
}
)
# be sure of no bad positivity
n=100000
W = truth_NT$f_W(n)
A = rbinom(n, 1, .5)
Z = rbinom(n,1,truth_NT$f_Z(A,W))
hist(truth_NT$f_M(Z,W), breaks = 200)
M = rbinom(n,1,truth_NT$f_M(Z,W))
# forms for non-transporting
formsNT=list(Aform = formula("A ~ W1 + W2"),
Zstarform = formula("Z ~ A + W1 + W2"),
QZform = formula("Qstar_Mg ~ W1 + W2"),
Mstarform = formula("M ~ Z + W1 + W2"),
Yform = formula("Y ~ M + Z + W1 + W2"))
formsNP=list(Sform = formula("S ~ W1 + W2"),
Aform = formula("A ~ W1 + W2 + S"),
Zform = formula("Z ~ S:(A + W1 + W2) + A + W1 + W2 + S"),
Zstarform = formula("Z ~ A + W1 + W2"),
QZform = formula("Qstar_Mg ~ W1 + W2 + S"),
Mform = formula("M ~ S:(Z + W1 + W2) + Z + W1 + W2 + S"),
Mstarform = formula("M ~ Z + W1 + W2"),
Yform = formula("Y ~ M + Z + W1 + W2"))
# forms for transporting with a pooled M
forms=list(Sform = formula("S ~ W1 + W2"),
Aform = formula("A ~ W2 + W1 + S"),
Zstarform = formula("Z ~ S:(A + W1 + W2) + A + W1 + W2 + S"),
QZform = formula("Qstar_Mg ~ S:(W2 + W1) + W2 + W1 + S"),
Mstarform = formula("M ~ S:(Z + W1 + W2) + Z + W1 + W2 + S"),
Yform = formula("Y ~ M + Z + W1 + W2"))
Wnames = c("W1", "W2")
Wnamesalways = c("W1")
res = lapply(1:334, FUN = function(x){
p = sample(1:1e6, 1)
set.seed(p)
data = gendata.SDEtransport(1000, truth$f_W, truth$f_S, truth$f_A,
truth$f_Z, truth$f_M, truth$f_Y)
data$weights = rep(1,nrow(data))
res1 = try(suppressWarnings(SDE_tmle_lasso(data, forms, RCT = 0.5, Wnames = Wnames,
Wnamesalways = Wnamesalways, transport = TRUE,
pooled = TRUE, gstar_S = 0, truth = truth)))
if (class(res1)[1]=="try-error") {
res = rep(0,8)
} else {
res = c(res1$CI_SDE, res1$SDE0, res1$CI_SIE, res1$SIE0)
}
return(list(res=res, p=p, data=data))
})
save(res, file = "res2.RData")
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