ma.wtd.statNA: Some Multivariate Descriptive Statistics for Weighted Data in...

In miceadds: Some Additional Multiple Imputation Functions, Especially for 'mice'

Some Multivariate Descriptive Statistics for Weighted Data in miceadds

Description

Some multivariate descriptive statistics for weighted datasets in miceadds. A list of (nested) multiply imputed data sets is also allowed as input.

Usage

ma.wtd.meanNA(data, weights=NULL, vars=NULL )

ma.wtd.sdNA(data, weights=NULL, vars=NULL, method="unbiased" )

ma.wtd.covNA(data, weights=NULL, vars=NULL, method="unbiased" )

ma.wtd.corNA(data, weights=NULL, vars=NULL, method="unbiased" )

ma.wtd.skewnessNA(data, weights=NULL, vars=NULL, method="unbiased" )

ma.wtd.kurtosisNA(data, weights=NULL, vars=NULL, method="unbiased" )

ma.wtd.quantileNA( data, weights=NULL, vars=NULL, type=7,
          probs=seq(0,1,.25) )

Arguments

data	Numeric data vector or data frame or objects of one of the classes datlist, imputationList, mids, mids.1chain, nested.datlist, NestedImputationList or BIFIEdata.
weights	Optional vector of sampling weights
vars	Optional vector of variable names
method	Computation method for covariances. These amount to choosing the divisor (n-1) (method="unbiased") instead of n (method="ML"). See stats::cov.wt for further details.
type	Quantile type. This specification follows TAM::weighted_quantile
probs	Vector of probabilities used for calculation of quantiles.

Details

Contrary to ordinary R practice, missing values are ignored in the calculation of descriptive statistics.

ma.wtd.meanNA	weighted means
ma.wtd.sdNA	weighted standard deviations
ma.wtd.covNA	weighted covariance matrix
ma.wtd.corNA	weighted correlation matrix
ma.wtd.skewnessNA	weighted skewness
ma.wtd.kurtosisNA	weighted (excess) kurtosis

Value

A vector or a matrix depending on the requested statistic.

Note

If data is of class BIFIEdata and no weights are specified, sample weights are extracted from the BIFIEdata object.

See Also

Some functions for weighted statistics: stats::weighted.mean, stats::cov.wt, {Hmisc::wtd.var}, TAM::weighted_quantile, ...

See micombine.cor for statistical inference of correlation coefficients.

Examples

#############################################################################
# EXAMPLE 1: Weighted statistics for a single dataset data.ma01
#############################################################################

data(data.ma01)
dat <- as.matrix(data.ma01[,-c(1:3)])

# weighted mean
ma.wtd.meanNA( dat, weights=data.ma01$studwgt )

# weighted SD
ma.wtd.sdNA( dat, weights=data.ma01$studwgt )

# weighted covariance for selected variables
ma.wtd.covNA( dat, weights=data.ma01$studwgt, vars=c("books","hisei") )

# weighted correlation
ma.wtd.corNA( dat, weights=data.ma01$studwgt )

## Not run: 
# weighted skewness
ma.wtd.skewnessNA( dat[,"books"], weights=data.ma01$studwgt )
# compare with result in TAM
TAM::weighted_skewness( x=dat[,"books"], w=data.ma01$studwgt )

# weighted kurtosis
ma.wtd.kurtosisNA( dat, weights=data.ma01$studwgt, vars=c("books","hisei") )
# compare with TAM
TAM::weighted_kurtosis( dat[,"books"], w=data.ma01$studwgt )
TAM::weighted_kurtosis( dat[,"hisei"], w=data.ma01$studwgt )

#############################################################################
# EXAMPLE 2: Weighted statistics multiply imputed dataset
#############################################################################

library(mitools)
data(data.ma05)
dat <- data.ma05

# do imputations
resp <- dat[, - c(1:2) ]
# object of class mids
imp <- mice::mice( resp, method="norm", maxit=3, m=5 )
# object of class datlist
datlist <- miceadds::mids2datlist( imp )
# object of class imputationList
implist <- mitools::imputationList(datlist)

# weighted means
ma.wtd.meanNA(datlist)
ma.wtd.meanNA(implist)
ma.wtd.meanNA(imp)

# weighted quantiles
ma.wtd.quantileNA( implist, weights=data.ma05$studwgt, vars=c("manote","Dscore"))

#############################################################################
# EXAMPLE 3: Weighted statistics nested multiply imputed dataset
#############################################################################

library(BIFIEsurvey)
data(data.timss2, package="BIFIEsurvey" )
datlist <- data.timss2   # list of 5 datasets containing 5 plausible values

#** define imputation method and predictor matrix
data <- datlist[[1]]
V <- ncol(data)
# variables
vars <- colnames(data)
# variables not used for imputation
vars_unused <- miceadds::scan.vec("IDSTUD TOTWGT  JKZONE  JKREP" )
#- define imputation method
impMethod <- rep("norm", V )
names(impMethod) <- vars
impMethod[ vars_unused ] <- ""
#- define predictor matrix
predM <- matrix( 1, V, V )
colnames(predM) <- rownames(predM) <- vars
diag(predM) <- 0
predM[, vars_unused ] <- 0

# object of class mids.nmi
imp1 <- miceadds::mice.nmi( datlist, method=impMethod, predictorMatrix=predM,
                m=4, maxit=3 )
# object of class nested.datlist
datlist <- miceadds::mids2datlist(imp1)
# object of class NestedImputationList
imp2 <- miceadds::NestedImputationList(datlist)

# weighted correlations
vars <- c("books","ASMMAT","likesc")
ma.wtd.corNA( datlist,  vars=vars )
ma.wtd.corNA( imp2,  vars=vars )
ma.wtd.corNA( imp1,  vars=vars )

#############################################################################
# EXAMPLE 4: Multiply imputed datasets in BIFIEdata format
#############################################################################

library(BIFIEsurvey)
data(data.timss1, package="BIFIEsurvey")
data(data.timssrep, package="BIFIEsurvey")

# create BIFIEdata object
bdat <- BIFIEsurvey::BIFIE.data( data.list=data.timss1, wgt=data.timss1[[1]]$TOTWGT,
            wgtrep=data.timssrep[, -1 ] )
summary(bdat)
# create BIFIEdata object in a compact way
bdat2 <- BIFIEsurvey::BIFIE.data( data.list=data.timss1, wgt=data.timss1[[1]]$TOTWGT,
            wgtrep=data.timssrep[, -1 ], cdata=TRUE)
summary(bdat2)

# compute skewness
ma.wtd.skewnessNA( bdat, vars=c("ASMMAT", "books" ) )
ma.wtd.skewnessNA( bdat2, vars=c("ASMMAT", "books" ) )

#############################################################################
# EXAMPLE 5: Nested multiply imputed datasets in BIFIEdata format
#############################################################################

data(data.timss4, package="BIFIEsurvey")
data(data.timssrep, package="BIFIEsurvey")

# nested imputed dataset, save it in compact format
bdat <- BIFIE.data( data.list=data.timss4, wgt=data.timss4[[1]][[1]]$TOTWGT,
            wgtrep=data.timssrep[, -1 ], NMI=TRUE, cdata=TRUE )
summary(bdat)
# skewness
ma.wtd.skewnessNA( bdat, vars=c("ASMMAT", "books" ) )

## End(Not run)

miceadds documentation built on May 29, 2024, 11:05 a.m.