Nothing
## ---- include = FALSE---------------------------------------------------------
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>"
)
## ----eval=FALSE---------------------------------------------------------------
# library("GFM")
# set.seed(1) # set a random seed for reproducibility.
## ----eval=FALSE---------------------------------------------------------------
# ## Homogeneous normal variables
# dat <- gendata(q = 2, n=100, p=100, rho=3)
## ----eval=FALSE---------------------------------------------------------------
# # Obtain the observed data
# XList <- dat$XList # this is the data in the form of matrix list.
# str(XList)
# X <- dat$X # this is the data in form of matrix
# # set variables' type, 'gaussian' means there is continous variable type.
# types <- 'gaussian'
## ----eval=FALSE---------------------------------------------------------------
# # specify q=2
# gfm1 <- gfm(XList, types, algorithm="AM", q=2, verbose = FALSE)
#
# # measure the performance of GFM estimators in terms of canonical correlations
# measurefun(gfm1$hH, dat$H0, type='ccor')
# measurefun(gfm1$hB, dat$B0, type='ccor')
## ----eval=FALSE---------------------------------------------------------------
# # select q automatically
# hq <- chooseFacNumber(XList, types, select_method='IC', q_set = 1:6, verbose = FALSE, parallelList=list(parallel=TRUE))
# hq
## ----eval=FALSE---------------------------------------------------------------
# dat <- gendata(seed=1, n=100, p=100, type='heternorm', q=2, rho=1)
# # Obtain the observed data
# XList <- dat$XList # this is the data in the form of matrix list.
# str(XList)
# X <- dat$X # this is the data in form of matrix
# # set variables' type, 'gaussian' means there is continous variable type.
# types <- 'gaussian'
## ----eval=FALSE---------------------------------------------------------------
# # specify q=2
# gfm1 <- gfm(XList, types, algorithm="AM", q=2, verbose = FALSE)
#
# # measure the performance of GFM estimators in terms of canonical correlations
# corH_gfm <- measurefun(gfm1$hH, dat$H0, type='ccor')
# corB_gfm <- measurefun(gfm1$hB, dat$B0, type='ccor')
#
# lfm1 <- Factorm(X, q=2)
# corH_lfm <- measurefun(lfm1$hH, dat$H0, type='ccor')
# corB_lfm <- measurefun(lfm1$hB, dat$B0, type='ccor')
#
# library(ggplot2)
# df1 <- data.frame(CCor= c(corH_gfm, corH_lfm, corB_gfm, corB_lfm),
# Method =factor(rep(c('GFM', "LFM"), times=2)),
# Quantity= factor(c(rep('factors',2), rep("loadings", 2))))
# ggplot(data=df1, aes(x=Quantity, y=CCor, fill=Method)) + geom_bar(position = "dodge", stat="identity",width = 0.5)
## ----eval=FALSE---------------------------------------------------------------
# # select q automatically
# hq <- chooseFacNumber(XList, types, select_method='IC', q_set = 1:6, verbose = FALSE, parallelList=list(parallel=TRUE))
## ----eval=FALSE---------------------------------------------------------------
# q <- 3; p <- 200
# dat <- gendata(seed=1, n=200, p=p, type='pois', q=q, rho=4)
# # Obtain the observed data
# XList <- dat$XList # this is the data in the form of matrix list.
# str(XList)
# X <- dat$X # this is the data in form of matrix
# # set variables' type, 'gaussian' means there is continous variable type.
# types <- 'poisson'
## ----eval=FALSE---------------------------------------------------------------
# system.time(
# gfm1 <- gfm(XList, types, algorithm="AM", q=3, verbose = FALSE)
# )
## ----eval=FALSE---------------------------------------------------------------
# system.time(
# hq <- chooseFacNumber(XList, types, q_set=1:6, select_method = "IC", parallelList=list(parallel=TRUE))
# )
#
## ----eval=FALSE---------------------------------------------------------------
#
# # measure the performance of GFM estimators in terms of canonical correlations
# corH_gfm <- measurefun(gfm1$hH, dat$H0, type='ccor')
# corB_gfm <- measurefun(gfm1$hB, dat$B0, type='ccor')
#
# lfm1 <- Factorm(X, q=3)
# corH_lfm <- measurefun(lfm1$hH, dat$H0, type='ccor')
# corB_lfm <- measurefun(lfm1$hB, dat$B0, type='ccor')
#
# library(ggplot2)
# df1 <- data.frame(CCor= c(corH_gfm, corH_lfm, corB_gfm, corB_lfm),
# Method =factor(rep(c('GFM', "LFM"), times=2)),
# Quantity= factor(c(rep('factors',2), rep("loadings", 2))))
# ggplot(data=df1, aes(x=Quantity, y=CCor, fill=Method)) + geom_bar(position = "dodge", stat="identity",width = 0.5)
## ----eval=FALSE---------------------------------------------------------------
# dat <- gendata(seed=1, n=200, p=200, type='pois_bino', q=2, rho=2)
# # Obtain the observed data
# XList <- dat$XList # this is the data in the form of matrix list.
# str(XList)
# X <- dat$X # this is the data in form of matrix
# # set variables' type, 'gaussian' means there is continous variable type.
# types <- dat$types
# table(dat$X[,1])
# table(dat$X[, 200])
# # user-specified q=2
# gfm2 <- gfm(XList, types, algorithm="AM", q=2, verbose = FALSE)
# measurefun(gfm2$hH, dat$H0, type='ccor')
# measurefun(gfm2$hB, dat$B0, type='ccor')
## ----eval=FALSE---------------------------------------------------------------
# # select q automatically
# hq <- chooseFacNumber(XList, types, select_method='IC', q_set = 1:4, verbose = FALSE, parallelList=list(parallel=TRUE))
# # measure the performance of GFM estimators in terms of canonical correlations
# corH_gfm <- measurefun(gfm2$hH, dat$H0, type='ccor')
# corB_gfm <- measurefun(gfm2$hB, dat$B0, type='ccor')
#
## ----eval=FALSE---------------------------------------------------------------
# lfm1 <- Factorm(dat$X, q=3)
# corH_lfm <- measurefun(lfm1$hH, dat$H0, type='ccor')
# corB_lfm <- measurefun(lfm1$hB, dat$B0, type='ccor')
#
# library(ggplot2)
# df1 <- data.frame(CCor= c(corH_gfm, corH_lfm, corB_gfm, corB_lfm),
# Method =factor(rep(c('GFM', "LFM"), times=2)),
# Quantity= factor(c(rep('factors',2), rep("loadings", 2))))
# ggplot(data=df1, aes(x=Quantity, y=CCor, fill=Method)) + geom_bar(position = "dodge", stat="identity",width = 0.5)
## -----------------------------------------------------------------------------
sessionInfo()
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