'update'

[morpheus.git] / reports / accuracy.R

diff --git a/reports/accuracy.R b/reports/accuracy.R
deleted file mode 100644 (file)
index d646ae3..0000000
--- a/reports/accuracy.R
+++ /dev/null
@@ -1,100 +0,0 @@
-optimBeta <- function(N, n, K, p, beta, b, link, ncores)
-{
-       library(morpheus)
-       res <- multiRun(
-               list(n=n,p=p,beta=beta,b=b,optargs=list(K=K,link=link)),
-               list(
-                       # morpheus
-                       function(fargs) {
-                               library(morpheus)
-                               K <- fargs$optargs$K
-                               M <- computeMoments(fargs$X, fargs$Y)
-                               fargs$optargs$M <- M
-                               mu <- computeMu(fargs$X, fargs$Y, fargs$optargs)
-                               op <- optimParams(K,link,fargs$optargs)
-                               x_init <- c( rep(1/K,K-1), as.double(mu), rep(0,K) )
-                               do.call(rbind, op$run(x_init))
-                       },
-                       # flexmix
-                       function(fargs) {
-                               library(flexmix)
-                               source("../patch_Bettina/FLXMRglm.R")
-                               K <- fargs$optargs$K
-                               dat <- as.data.frame( cbind(fargs$Y,fargs$X) )
-                               fm <- flexmix( cbind(V1, 1-V1) ~ .-V1, data=dat, k=K,
-                                       model = FLXMRglm(family = binomial(link = link)) )
-                               p <- mean(fm@posterior[["scaled"]][,1])
-                               out <- refit(fm)
-                               beta_b <- sapply( seq_len(K), function(i) {
-                                       as.double( out@components[[1]][[i]][,1] )
-                               } )
-                               rbind(p, beta_b[2:nrow(beta_b),], beta_b[1,])
-                       } ),
-               prepareArgs = function(fargs, index) {
-                       library(morpheus)
-                       io = generateSampleIO(fargs$n, fargs$p, fargs$beta, fargs$b, fargs$optargs$link)
-                       fargs$X = io$X
-                       fargs$Y = io$Y
-                       fargs$optargs$K = ncol(fargs$beta)
-                       fargs$optargs$M = computeMoments(io$X,io$Y)
-                       fargs
-               }, N=N, ncores=ncores, verbose=TRUE)
-       p <- c(p, 1-sum(p))
-       for (i in 1:2)
-               res[[i]] <- alignMatrices(res[[i]], ref=rbind(p,beta,b), ls_mode="exact")
-       res
-}
-
-#model = binomial; default values:
-link = "logit"
-N <- 10
-d <- 2
-n <- 1e4
-ncores <- 1
-
-cmd_args <- commandArgs()
-for (arg in cmd_args)
-{
-       if (substr(arg,1,1)!='-') {
-               spl <- strsplit(arg,'=')[[1]]
-               if (spl[1] == "nc") {
-                       ncores <- as.integer(spl[2])
-               } else if (spl[1] == "N") {
-                       N <- as.integer(spl[2])
-               } else if (spl[1] == "n") {
-                       n <- as.integer(spl[2])
-               } else if (spl[1] == "d") {
-                       d <- as.integer(spl[2])
-               } else if (spl[1] == "link") {
-                       link <- spl[2]
-               }
-       }
-}
-
-if (d == 2) {
-       K <- 2
-       p <- .5
-       b <- c(-.2, .5)
-       beta <- matrix( c(1,-2, 3,1), ncol=K )
-} else if (d == 5) {
-       K <- 2
-       p <- .5
-       b <- c(-.2, .5)
-       beta <- matrix( c(1,2,-1,0,3, 2,-3,0,1,0), ncol=K )
-} else if (d == 10) {
-       K <- 3
-       p <- c(.3, .3)
-       b <- c(-.2, 0, .5)
-       beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2), ncol=K )
-} else if (d == 20) {
-       K <- 3
-       p <- c(.3, .3)
-       b <- c(-.2, 0, .5)
-       beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2,2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2,1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0,1,1,2,2,-2,-2,3,1,0,0), ncol=K )
-}
-
-mr <- optimBeta(N, n, K, p, beta, b, link, ncores)
-mr_params <- list("N"=N, "n"=n, "K"=K, "d"=d, "link"=link,
-       "p"=c(p,1-sum(p)), "beta"=beta, "b"=b)
-
-save("mr", "mr_params", file=paste("multirun_",d,"_",link,".RData",sep=""))