simputation

An R package to make imputation simple. Currently supported methods include

• Model based (optionally add [non-]parametric random residual)
  • linear regression
  • robust linear regression (M-estimation)
  • ridge/elasticnet/lasso regression (from version >= 0.2.1)
  • CART models
  • Random forest
• Model based, multivariate
  • Imputation based on EM-estimated parameters (from version >= 0.2.1)
  • missForest (from version >= 0.2.1)
• Donor imputation (including various donor pool specifications)
  • k-nearest neigbour (based on gower's distance)
  • sequential hotdeck (LOCF, NOCB)
  • random hotdeck
  • Predictive mean matching
• Other
  • (groupwise) median imputation (optional random residual)
  • Proxy imputation (copy from other variable)

Installation

To install simputation and all packages needed to support various imputation models do the following.

install.packages("simputation", dependencies=TRUE)

Example usage

Create some data suffering from missings

library(simputation) # current package
library(magrittr)    # for the %>% not-a-pipe operator
dat <- iris
# empty a few fields
dat[1:3,1] <- dat[3:7,2] <- dat[8:10,5] <- NA
head(dat,10)

Now impute Sepal.Length and Sepal.Width by regression on Petal.Length and Species, and impute Species using a CART model, that uses all other variables (including the imputed variables in this case).

dat %>% 
  impute_lm(Sepal.Length + Sepal.Width ~ Petal.Length + Species) %>%
  impute_cart(Species ~ .) %>% # use all variables except 'Species' as predictor
  head(10)

Materials

• A blogpost introducing the package
• The introductory vignette

Beta versions can be installed from my drat repo. If you use the OS whose name shall not be spoken, first install Rtools.

if(!require(drat)) install.packages("drat")
drat::addRepo("markvanderloo")
install.packages("simputation",type="source")