cleanEHR (version 0.1)

ccTable-class: Rearrange and clean the critical care record into a 2D table.

Description

Data rearranging and major data cleaning processes will be performed under the ccTable structre. It holds the original record (ccRecord), the dirty table (torigin) clean table (tclean) and various data quality information (dquality). Various data filters can also be found within the ccTable class.

Fields

record

ccRecord.

conf

the YAML style configuration.

torigin

the original wide data table.

tclean

the wide data table after cleaning processes.

dfilter

list contains data filtering information.

dquality

list contains data quality.

summary

list

base_cadence

the base cadence is specified in hours

Methods

apply.filters(warnings = T)

Apply all filters specified in the configuration to update the clean table (tclean)

create.table(freq)

Create a table contains the selected items in the conf with a given frequency (in hour)

export.csv(file = NULL)

Export the cleaned table to a CSV file.

filter.category()

Check individual entries if they are the in the categories specified in conf.

filter.missingness(recount = FALSE)

filter out the where missingness is too low.

filter.null(items = c("episode_id", "site"))

remove the entire episode when any of the selected items is NULL

imputation()

Filling missing data to a time series data by performing a given imputation method on a selected window period nearby the missing data.

reload.conf(file)

reload yaml configuration.

Examples

# NOT RUN {
rec <- ccRecord()
cctable <- create.cctable(rec, freq=1)
cctable <- cctable$clean()
#table <- cctable$tclean 
# }