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clinUtils (version 0.2.1)

General Utility Functions for Analysis of Clinical Data

Description

Utility functions to facilitate the import, the reporting and analysis of clinical data. Example datasets in 'SDTM' and 'ADaM' format, containing a subset of patients/domains from the 'CDISC Pilot 01 study' are also available as R datasets to demonstrate the package functionalities.

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install.packages('clinUtils')

Monthly Downloads

754

Version

0.2.1

License

MIT + file LICENSE

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Repository

https://github.com/openanalytics/clinUtils

Maintainer

Laure Cougnaud

Last Published

September 3rd, 2025

Functions in clinUtils (0.2.1)

formatLongLabel

Format a variable with long labels

convertToDateTime

Convert character vector to date/time object

formatDetailsComparison

Format details comparison

formatTableLabel

Concatenate and format text strings to a label of a table

formatVarForPlotLabel

Format parameter variable to be displayed in the labels of a plot

getPaletteCDISC

Get standard palette for typical CDISC variables.

getLinetypePalette

Get a linetype palette for clinical visualizations.

roundHalfUpTextFormat

Round a number with 'round-up' strategy for rounding off a 5 in text format

Capitalize the first letter of a word/sentence.

Round a number with 'rounding up' strategy for rounding off a 5

shapePaletteNRIND

Shape palette for a standard CDISC Normal/Reference Range Indicator.

Function for reordering columns

getColorPalette

Get a color palette for clinical visualizations.

Custom merge of difference data with input data

getLabelParamcd

Get label for a parameter code

Get additions/removals

Concatenate and format text strings to a label

getShapePalette

Get a shape palette for clinical visualizations.

mergeDiffWithData

Merge the 'diff.data' object from compareDiff with the original newData or oldData.

loadDataADaMSDTM

Load data from ADaM/SDTM file(s).

getClinDTButtons

Get a default set of buttons to be included in the interactive table for clinical data.

Create an interactive table to display clinical data

Get label for a variable of the dataset

Get label of the variables in SAS dataset(s)

knitPrintListObjects

Include a list of objects in a knitr document

knitPrintListPlots

Include a list of plots in a knitr document

comparisonTables-common-args

General parameters used for the comparison table functionality

clinUtils-palette

Parameters for all palette functions for clinical visualizations.

colorPaletteNRIND

Color palette for a standard CDISC Normal/Reference Range Indicator.

Check if specified variables are in the data. If they are not, they are removed from specified variables and a message is printed.

Colors of 'clinUtils'

Get differences between two data.frames

Shapes of 'clinUtils'

Shapes of 'clinUtils' as text

Linetypes of 'clinUtils'

dataADaMCDISCP01

Example of ADaM datasets from the CDISC original Pilot 01 study

convertToDatatable

Convert to data.table

Export the 'diff.data' object from compareDiff to a user-friendly format

Format a variable in a datatable as a barplot.

formatLabelChunk

Concatenate and format text strings to a chunk label

dataSDTMCDISCP01

Example of SDTM datasets from the CDISC original Pilot 01 study