Data Management Tools for CALIBER Datasets


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Documentation for package ‘CALIBERdatamanage’ version 0.1-14

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CALIBERdatamanage-package Data Management Tools for CALIBER Datasets
addCategoryToCohort Creates one row per patient from repeated categorical data
addCodelistToCohort Adds information from categories based on a codelist
addToCohort Generate a variable from repeat measures
as.cohort Functions for handling cohort objects
as.data.table.cohort S3 methods to convert between FFDF and data.table
as.data.table.ffdf S3 methods to convert between FFDF and data.table
as.ffdf.cohort S3 methods to convert between FFDF and data.table
as.ffdf.data.table S3 methods to convert between FFDF and data.table
CALIBERdatamanage Data Management Tools for CALIBER Datasets
chooseByPriority Chooses an item from a vector according to a defined priority order
cohort S3 class for cohort datasets (one row per patient)
convertDates Converts all date columns in a data.table from character to IDate
exportTable Export a LaTeX table to file
extractCodes Extract subset of data according to medcode (Read code), OPCS, ICD-10 or product code
extractEntity Extract and decode data from a CPRD GOLD format dataset
formatci Format numerical results for export tables
formathr Format numerical results for export tables
formatnum Format numerical results for export tables
formatp Format numerical results for export tables
GEN_SDCtoDate Convert CPRD special date formats to IDate
importDT Import a file to data.table
importFFDF Import a file to flat file data.frame (FFDF)
is.cohort Functions for handling cohort objects
isfalse Whether a vector is TRUE or FALSE, ignoring missing values
istrue Whether a vector is TRUE or FALSE, ignoring missing values
meansd Calculate and format summary statistics
merge.cohort Functions for handling cohort objects
modifyDescription Modify the description table for a data.frame, ffdf, data.table or matrix object.
multiforest Produce multiple forest plots side by side
multiforestPDF Produce multiple forest plots side by side
multiforestPNG Produce multiple forest plots side by side
nmissing Calculate and format summary statistics
npercent Calculate and format summary statistics
percent Calculate and format summary statistics
percentConf Calculate and format summary statistics
print.cohort Functions for handling cohort objects
purgeDescription Modify the description table for a data.frame, ffdf, data.table or matrix object.
removeColumns Remove columns from a cohort object
removeVariables Remove columns from a cohort object
setnames Modify column names for ffdf, cohort or data.table objects
setnames.cohort Modify column names for ffdf, cohort or data.table objects
setnames.data.table Modify column names for ffdf, cohort or data.table objects
setnames.ffdf Modify column names for ffdf, cohort or data.table objects
subset.cohort Functions for handling cohort objects
summary.cohort Functions for handling cohort objects
summaryTable Create a publication summary table from a template
test_data Sample CPRD GOLD format data
test_entity Sample subset of the CPRD entity table
test_import Test dataset for import functions
test_lookups Sample lookups table
test_multiforest Sample output specificaton for forest plot
test_multiforest2 Test data for multiforest function
textToDate Convert dates in a wide variety of formats to IDate
transferColumns Transfer variables from one dataset to another
transferVariables Transfer variables from one dataset to another
YYYYMMDDtoDate Convert CPRD special date formats to IDate