Package: epicmodel 0.2.1.9000

epicmodel: Causal Modeling in Epidemiology

Create causal models for use in epidemiological studies, including sufficient-component cause models as introduced by Rothman (1976) <doi:10.1093/oxfordjournals.aje.a112335>.

Authors:Felix Forster [aut, cre, cph]

epicmodel_0.2.1.9000.tar.gz
epicmodel_0.2.1.9000.zip(r-4.7-any)epicmodel_0.2.1.9000.zip(r-4.6-any)epicmodel_0.2.1.9000.zip(r-4.5-any)
epicmodel_0.2.1.9000.tgz(r-4.6-any)epicmodel_0.2.1.9000.tgz(r-4.5-any)
epicmodel_0.2.1.9000.tar.gz(r-4.7-any)epicmodel_0.2.1.9000.tar.gz(r-4.6-any)
epicmodel_0.2.1.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
epicmodel/json (API)

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

Bug tracker:https://github.com/forsterepi/epicmodel/issues

Pkgdown/docs site:https://forsterepi.github.io

Datasets:

On CRAN:

Conda:

4.70 score 1 stars 6 scripts 284 downloads 27 exports 98 dependencies

Last updated from:e63971ce1d. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK241
source / vignettesOK217
linux-releaseOK240
macos-releaseOK182
macos-oldrelOK236
windows-develOK158
windows-releaseOK193
windows-oldrelOK180
wasm-releaseOK141

Exports:are_sufficientcheck_steplistcreate_scceffect_sizeempty_sccempty_steplistexport_mechanismintervenelaunch_steplist_creatormechanismnecessary_causesnew_mechanismnew_sccnew_steplistplot_dagpreventremove_all_modulesremove_naremove_segmentsc_contain_stepsscc_cause_setsscc_to_dagshow_stepsuncheck_steplistvalidate_mechanismvalidate_sccvalidate_steplist

Dependencies:askpassassertthatbackportsbase64encbitbit64bootbslibcachemcheckmateclicliprcommonmarkcpp11crayoncrosstalkcurldagittyDiagrammeRdigestdplyrDTevaluatefarverfastmapfontawesomefsgenericsggplot2gluegtablegtoolshighrhmshtmltoolshtmlwidgetshttpuvhttrigraphisobandjquerylibjsonliteknitrlabelinglaterlatticelazyevallifecyclemagrittrMASSMatrixmemoisemimeopensslotelpillarpkgconfigprettyunitsprogresspromisesprompterpurrrR6rappdirsRColorBrewerRcppreadrrlangrmarkdownrstudioapiS7sassscalesshinyshinyalertshinyjsshinythemessourcetoolsspsUtilstringistringrsystibbletidyrtidyselecttinytextzdbutf8uuidV8vctrsviridisLitevisNetworkvroomwithrxfunxtableyaml

SCC Models
Why SCC? | How can SCC models be used? | Algorithm for SCC model creation | IFNOT conditions, sufficiency status, and the concept of time | Unknown causes | Other functions for SCC models | Print all step IDs and descriptions | Inspect if sufficient causes contain certain steps | Get component causes as list | Check sufficiency for a set of component causes | Extract necessary causes | References
Rendered fromscc.Rmdusingknitr::rmarkdown

Last update: 2024-12-10
Started: 2024-10-31

epicmodel
Task 1: Create steplist | Task 2: Create SCC model from steplist | Task 3: Use SCC model | Causal pies | Standardized effect size | Mechanisms | Interventions | Prevention | DAGs | References
Rendered fromepicmodel.Rmdusingknitr::rmarkdown

Last update: 2024-12-08
Started: 2024-10-31

Glossary
Rendered fromglossary.Rmdusingknitr::rmarkdown

Last update: 2024-12-08
Started: 2024-10-31

Modules
Define modules | Plot steplist | Mechanisms | SCC model summary
Rendered frommodules.Rmdusingknitr::rmarkdown

Last update: 2024-11-30
Started: 2024-10-31

Steplists
Input for SCC model creation | Step structure | THEN statements | IF and IFNOT conditions | Step types | Steplist | Additional step attributes | Steplist elements | Steplist creation | Processing steplists in R | Checked and unchecked steplists
Rendered fromsteplist.Rmdusingknitr::rmarkdown

Last update: 2024-11-30
Started: 2024-10-31

Readme and manuals

Help Manual

Help pageTopics
Check if a certain set of component causes is suffcientare_sufficient
Check 'epicmodel_steplist' class objectscheck_steplist
Creating SCC modelscreate_scc
Determine standardized effect size of component causeseffect_size
Export mechanismsexport_mechanism
Explore effect of interventionsintervene
Launch steplist creator 'shiny' applaunch_steplist_creator
Investigate mechanismsmechanism new_mechanism plot.epicmodel_mechanism print.epicmodel_mechanism validate_mechanism
Extract necessary causesnecessary_causes
SCC model objectsempty_scc new_scc plot.epicmodel_scc print.epicmodel_scc summary.epicmodel_scc validate_scc
Steplist objectsempty_steplist new_steplist plot.epicmodel_steplist plot.epicmodel_steplist_checked print.epicmodel_steplist print.epicmodel_steplist_checked summary.epicmodel_steplist summary.epicmodel_steplist_checked validate_steplist
Plot DAGplot_dag
Explore effect of preventionprevent
Remove all modulesremove_all_modules
Removing NA in 'icc' and 'outc'remove_na
Remove segmentsremove_segment
Do steps appear in sufficient causes?sc_contain_steps
Extracting component causes from SCC modelscc_cause_sets
Rain example SCC modelscc_rain
Transform SCC to DAGscc_to_dag
Show all steps of a SCC modelshow_steps
Birthday party example stepliststeplist_party
Rain example stepliststeplist_rain
Unchecking 'epicmodel_steplist' objectsuncheck_steplist