Function reference

Package Overview

chevron chevron-package

chevron package

Classes and Instances

chevron_t() chevron_l() chevron_g()

chevron_t

Methods

args_ls()

Get Arguments List

run()

Run the pipeline

main() `main<-`()

Main

preprocess() `preprocess<-`()

Pre process

postprocess() `postprocess<-`()

Post process

datasets() `datasets<-`()

Datasets

script_args() script_funs()

Create Script for Parameters Assignment

get_main()

Retrieve Main Function

get_preprocess()

Retrieve pre-processing Function

get_postprocess()

Retrieve post-processing Function

get_adam_datasets()

Retrieve names of datasets associated with the object

chevron_tlg objects

aet01_1_main() aet01_1_lyt() aet01_1_pre() aet01_1_check() aet01_post() aet01_1

AET01 Table 1 (Default) Overview of Deaths and Adverse Events Summary Table 1.

aet01_2_main() aet01_2_lyt() aet01_2_pre() aet01_2_check() aet01_2

AET01 Table 2 (Supplementary) Overview of Deaths and Adverse Events Summary Table 2. Overview of death and summary of adverse events with medical concepts.

aet01_aesi_1_main() aet01_aesi_1_lyt() aet01_aesi_1_pre() aet01_aesi_1_check() aet01_aesi_post() aet01_aesi_1

AET01_AESI Table 1 (Default) Adverse Event of Special Interest Summary Table.

aet02_1_main() aet02_1_lyt() aet02_1_pre() aet02_1_check() aet02_1_post() aet02_1

AET02 Table 1 (Default) Adverse Events by System Organ Class and Preferred Term Table 1

aet02_2_main() aet02_2_lyt() aet02_2_pre() aet02_2_post() aet02_2 aet02_3_main()

AET02 Table 2 (Supplementary) Adverse Events by System Organ Class, High Level Term and Preferred Term Table 2.

aet02_3_lyt() aet02_3_pre() aet02_3_post() aet02_3

AET02 Table 3 (Supplementary) Adverse Events by Dictionary-Derived Term Table 3.

aet03_1_main() aet03_1_lyt() aet03_1_pre() aet03_1_post() aet03_1

AET03 Table 1 (Default) Advert Events by Greatest Intensity Table 1.

aet04_1_main() aet04_1_lyt() aet04_1_pre() aet04_1_post() aet04_1

AET04 Table 1 (Default) Adverse Events by Highest NCI CTACAE AE Grade Table 1.

cmt01a_1_main() cmt01a_1_lyt() cmt01a_1_pre() cmt01a_1_post() cmt01a_1

CMT01A Table 1 (Default) Concomitant Medication by Medication Class and Preferred Name.

cmt01a_2_main() cmt01a_2_pre() cmt01a_2_post() cmt01a_2

CMT01A Table 2 (Supplementary) Concomitant Medication by Medication Class and Preferred Name (Classes sorted by frequency).

cmt01a_3_main() cmt01a_3_lyt() cmt01a_3_pre() cmt01a_3_post() cmt01a_3

CMT01A Table 3 (Supplementary) Concomitant Medication by Medication Class and Preferred Name (Total number of treatments per medication class suppressed).

cmt02_pt_1_main() cmt02_pt_1_lyt() cmt02_pt_1_pre() cmt02_pt_1_post() cmt02_pt_1

CMT02_PT Table 1 (Default) Concomitant Medications by Preferred Name.

dmt01_1_main() dmt01_1_lyt() dmt01_1_pre() dmt01_1_post() dmt01_1

DMT01 Table 1 (Default) Demographics and Baseline Characteristics Table 1.

dst01_1_main() dst01_1_lyt() dst01_1_pre() dst01_1_post() dst01_1

DST01 Table 1 (Default) Patient Disposition Table 1.

dst01_2_main() dst01_2_lyt() dst01_2_pre() dst01_2_post() dst01_2

DST01 Table 2 (Supplementary) Patient Disposition Table 2.

dst01_3_main() dst01_3_lyt() dst01_3_pre() dst01_3_post() dst01_3

DST01 Table 3 (Supplementary) Patient Disposition Table 3.

dtht01_1_main() dtht01_1_lyt() dtht01_1_opt_lyt() dtht01_1_pre() dtht01_1_post() dtht01_1

DTHT01 Table 1 (Default) Death Table.

egt01_1_main() egt01_1_lyt() egt01_1_pre() egt01_1_post() egt01_1

EGT01 Table 1 (Default) ECG Assessments and Change from Baseline by Visit Table 1.

egt02_1_main() egt02_1_lyt() egt02_1_pre() egt02_1_post() egt02_1

EGT02 Table 1 (Default) ECG Abnormalities Table 1.

egt02_2_main() egt02_2_lyt() egt02_2_pre() egt02_2_post() egt02_2

EGT02 Table 2 (Supplementary) ECG Abnormalities Table 2.

egt03_1_main() egt03_1_lyt() egt03_1_check() egt03_1_pre() egt03_1_post() egt03_1

EGT03 Table 1 (Default) Shift Table of ECG Interval Data - Baseline versus Minimum Post-Baseline

egt03_2_main() egt03_2_lyt() egt03_2_pre() egt03_2_post() egt03_2

EGT03 Table 2 Shift Table of ECG Interval Data - Baseline versus Maximum Post-Baseline

egt05_qtcat_1_main() egt05_qtcat_1_lyt() egt05_qtcat_1_pre() egt05_qtcat_1_post() egt05_qtcat_1

EGT05_QTCAT Table 1 (Default) ECG Actual Values and Changes from Baseline by Visit Table 1.

ext01_1_main() ext01_1_lyt() ext01_1_pre() ext01_1_post() ext01_1

EXT01 Table 1 (Default) Exposure Summary Table.

ext01_2_main() ext01_2_lyt() ext01_2_pre() ext01_2_post() ext01_2

EXT01 Table 2 (Supplementary) Exposure Summary Table with grouping options

lbt01_1_main() lbt01_1_lyt() lbt01_1_pre() lbt01_1_post() lbt01_1

LBT01 Table 1 (Default) Laboratory Test Results and Change from Baseline by Visit.

lbt04_1_main() lbt04_1_lyt() lbt04_1_pre() lbt04_1_check() lbt04_1_post() lbt04_1

LBT04 Table 1 (Default) Laboratory Abnormalities Not Present at Baseline.

lbt05_1_main() lbt05_1_lyt() lbt05_1_pre() lbt05_1_check() lbt05_1_post() lbt05_1

LBT05 Table 1 (Default) Laboratory Abnormalities with Single and Replicated Marked.

lbt07_1_main() lbt07_1_lyt() lbt07_1_pre() lbt07_1_check() lbt07_1_post() lbt07_1

LBT07 Table 1 (Default) Laboratory Test Results and Change from Baseline by Visit.

lbt14_1_main() lbt14_1_lyt() lbt14_1_pre() lbt14_1_check() lbt14_1_post() lbt14_1

LBT14 Table 1 (Low Direction) Laboratory Test Results Shift Table – Highest NCI-CTCAE Grade Post-Baseline by Baseline Grade.

lbt14_2_main() lbt14_2_lyt() lbt14_2_pre() lbt14_2_check() lbt14_2_post() lbt14_2

LBT14 Table 2 (High Direction) Laboratory Test Results Shift Table – Highest NCI-CTCAE Grade Post-Baseline by Baseline Grade.

mht01_1_main() mht01_1_lyt() mht01_1_pre() mht01_1_post() mht01_1

MHT01 Table 1 (Default) Medical History Table 1.

mng01_1_main() mng01_1_pre() mng01_1_post() mng01_1

MNG01 Graph 1 (Default) Mean Plot 1.

vst01_1_main() vst01_1_lyt() vst01_1_pre() vst01_1_post() vst01_1

VST01 Table 1 (Default) Vital Sign Results and change from Baseline By Visit Table 1.

vst02_1_main() vst02_1_lyt() vst02_1_pre() vst02_1_post() vst02_1

VST02 Table 1 (Default) Vital Sign Abnormalities Table 1.

vst02_2_main() vst02_2_lyt() vst02_2_pre() vst02_2_post() vst02_2

VST02 Table 2 (Supplementary) Vital Sign Abnormalities Table 2.

pdt01_1_main() pdt01_1_lyt() pdt01_1_pre() pdt01_1_post() pdt01_1

pdt01_1 Table 1 (Default) Major Protocol Deviations.

pdt02_1_main() pdt02_1_lyt() pdt02_1_pre() pdt02_1_post() pdt02_1

pdt02_1 Table 1 (Default) Major Protocol Deviations Related to Epidemic/Pandemic.

Data

syn_data

Example adam Synthetic Data

Utility Functions

get_db_data()

Get Data from a DB

report_null() null_report

Create a Null Report

smart_prune()

Prune Table up to an ElementaryTable

std_deco()

Standard documentation lookup

var_labels_for()

Retrieve labels for certain variables

h_format_dec()

Decimal Formatting

gg_list()

List of gg object

grob_list()

List of grob object

Non-exported Documented Functions for Packagage Developers

gen_args()

General Argument Name Convention

fuse_sequentially()

Fuse list elements