Package: secuTrialR 1.3.3

Alan G. Haynes

secuTrialR: Handling of Data from the Clinical Data Management System 'secuTrial'

Seamless and standardized interaction with data exported from the clinical data management system (CDMS) 'secuTrial'<https://www.secutrial.com>. The primary data export the package works with is a standard non-rectangular export.

Authors:Alan G. Haynes [cre, aut, cph], Patrick R. Wright [aut, cph], Milica Markovic [aut, cph], Gilles Dutilh [ctb], Armando Lenz [ctb], Pascal Benkert [com], Silvia Grieder [ctb], Pia Neuschwander [ctb], Constantin Sluka [ctb]

secuTrialR_1.3.3.tar.gz
secuTrialR_1.3.3.zip(r-4.5)secuTrialR_1.3.3.zip(r-4.4)secuTrialR_1.3.3.zip(r-4.3)
secuTrialR_1.3.3.tgz(r-4.4-any)secuTrialR_1.3.3.tgz(r-4.3-any)
secuTrialR_1.3.3.tar.gz(r-4.5-noble)secuTrialR_1.3.3.tar.gz(r-4.4-noble)
secuTrialR_1.3.3.tgz(r-4.4-emscripten)secuTrialR_1.3.3.tgz(r-4.3-emscripten)
secuTrialR.pdf |secuTrialR.html✨
secuTrialR/json (API)
NEWS

# Install 'secuTrialR' in R:
install.packages('secuTrialR', repos = c('https://ctu-bern.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/swissclinicaltrialorganisation/secutrialr/issues

On CRAN:

5.97 score 8 stars 13 scripts 530 downloads 28 exports 38 dependencies

Last updated 6 months agofrom:9583775b46. Checks:OK: 7. Indexed: no.

TargetResultDate
Doc / VignettesOKOct 27 2024
R-4.5-winOKOct 27 2024
R-4.5-linuxOKOct 27 2024
R-4.4-winOKOct 27 2024
R-4.4-macOKOct 27 2024
R-4.3-winOKOct 27 2024
R-4.3-macOKOct 27 2024

Exports:annual_recruitmentbuild_secuTrial_urldates_secuTrialdictionary_secuTrialdiff_secuTrialexport_dateexport_datetimefactorize_secuTrialform_status_countsform_status_summaryget_participantslabellabel_secuTriallabel<-labels_secuTriallinks_secuTrialplot_recruitmentread_secuTrialread_secuTrial_rawread_validation_overviewreturn_hidden_itemsreturn_random_participantsreturn_scoressubset_secuTrialunitsunits<-visit_structurewrite_secuTrial

Dependencies:bitbit64cellrangerclicliprcpp11crayondplyrfansiforcatsgenericsgluehavenhmslifecyclelubridatemagrittrpillarpkgconfigprettyunitsprogresspurrrR6readrreadxlrematchrlangstringistringrtibbletidyrtidyselecttimechangetzdbutf8vctrsvroomwithr

secuTrialR - a walkthrough

Patrick R. Wright, Milica Markovic, Alan G. Haynes

Rendered fromsecuTrialR-package-vignette.Rmdusingknitr::rmarkdownon Oct 27 2024.

Last update: 2020-08-27
Started: 2019-03-25

Readme and manuals

Help Manual

Help pageTopics
Returns a data.frame showing the annual recruitment per centerannual_recruitment
as.data.frame method for secuTrialdata objects Make the data from the exports more easily accessible by placing them in another environment (e.g. place them in the global environment ('.GlobalEnv') and you can reference them without referring to the 'secuTrialdata' object anymore. Ie. they become regular 'data.frame's).as.data.frame.secuTrialdata
Asses completeness of data for each variable in a secuTrial exportassess_form_variable_completeness
Compose a secuTrial URLbuild_secuTrial_url
Returns deviations from suggested export optionscheck_export_options
Methods to handle date(times)s in secuTrial exportsdates_secuTrial dates_secuTrial.secuTrialdata
Data dictionary for secuTrialdata objectsdictionary_secuTrial
Returns differences in the setup of two 'secuTrialdata' objectsdiff_secuTrial
Return the date and time that an export was performedexport_date export_datetime
Add factors to 'secuTrialdata' objectsfactorize factorize_secuTrial factorize_secuTrial.secuTrialdata
A function to assess the status of formsform_status_counts
A function to show summary statistics for form statusesform_status_summary
Retrieves participants present in 'secuTrialdata'get_participants
Get variable labels for secuTrialdata objectslabel label<- labels_secuTrial label_secuTrial units units<-
Show links between formslinks_secuTrial
Plots the recruitment over time for 'secuTrialdata' objectsplot_recruitment
Read secuTrial exportread_secuTrial
This function loads a multi-page secuTrial 'Validation Overview' report into an R tibble.read_validation_overview
Returns hidden items (variables) from 'secuTrialdata' objectsreturn_hidden_items
Returns the random participants from a secuTrial exportreturn_random_participants
Returns the score (calculated) items from 'secuTrialdata' objectsreturn_scores
This function loads a secuTrial exportprint.secuTrialdata read_secuTrial_raw secuTrialdata
Subsets a 'secuTrialdata' objectsubset_secuTrial
Get the visit structure of 'secuTrialdata' objectsplot.secuTrialvisit visit_structure
Write secuTrial exports to other formatswrite_secuTrial write_secuTrial.data.frame write_secuTrial.secuTrialdata