sbalci/ClinicoPathJamoviModule

---
title: "workflows"
output: rmarkdown::html_vignette
vignette: >
  %\VignetteIndexEntry{workflows}
  %\VignetteEngine{knitr::rmarkdown}
  %\VignetteEncoding{UTF-8}
---

<!-- ```{r global options, include=FALSE} -->
<!-- knitr::opts_chunk$set( -->
<!--   collapse = TRUE, -->
<!--   comment = "#>" -->
<!-- ) -->
<!-- ``` -->


<!-- ```{r setup} -->
<!-- library(ClinicoPath) -->
<!-- ``` -->



<!-- ```{r flow_tableone} -->

<!-- flow::flow_view(x = ClinicoPath::tableone) -->

<!-- ``` -->



<!-- --- -->


<!-- **Workflow for ClinicoPath::tableone**  -->



<!-- <img src='figures/flow_tableone.png' align='center' width = 75% /> -->



<!-- --- -->


<!-- **Workflow for ClinicoPath::summarydata**  -->


<!-- <img src='figures/flow_summarydata.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::reportcat**  -->


<!-- <img src='figures/flow_reportcat.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::alluvial**  -->


<!-- <img src='figures/flow_alluvial.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::agepyramid**  -->


<!-- <img src='figures/flow_agepyramid.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::crosstable**  -->



<!-- <img src='figures/flow_crosstable.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::survival**  -->



<!-- <img src='figures/flow_survival.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::multisurvival**  -->



<!-- <img src='figures/flow_multisurvival.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::oddsratio**  -->



<!-- <img src='figures/flow_oddsratio.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::agreement**  -->



<!-- <img src='figures/flow_agreement.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::decision**  -->



<!-- <img src='figures/flow_decision.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::decisioncalculator**  -->


<!-- <img src='figures/flow_decisioncalculator.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::statsplot2**  -->



<!-- <img src='figures/flow_statsplot2.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjbarstats**  -->



<!-- <img src='figures/flow_jjbarstats.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjbetweenstats**  -->


<!-- <img src='figures/flow_jjbetweenstats.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjcorrmat**  -->



<!-- <img src='figures/flow_jjcorrmat.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjdotplotstats**  -->



<!-- <img src='figures/flow_jjdotplotstats.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjhistostats**  -->



<!-- <img src='figures/flow_jjhistostats.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjpiestats**  -->



<!-- <img src='figures/flow_jjpiestats.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjscatterstats**  -->


<!-- <img src='figures/flow_jjscatterstats.png' align='center' width = 75% /> -->


<!-- --- -->


<!-- **Workflow for ClinicoPath::jjwithinstats**  -->


<!-- <img src='figures/flow_jjwithinstats.png' align='center' width = 75% /> -->


<!-- --- -->








<!-- ```{r get all functions in ClinicoPath} -->
<!-- # functionsClinicoPath <- getNamespaceExports(ns = "ClinicoPath") -->

<!-- functionsClinicoPath <- c( -->
<!--     "tableone", -->
<!--     "summarydata", -->
<!--     "reportcat", -->
<!--     "alluvial", -->
<!--     "agepyramid", -->

<!--     "crosstable", -->

<!--     # Survival -->
<!--     "survival", -->
<!--     "multisurvival", -->
<!--     "oddsratio", -->

<!--     # Agreement -->
<!--     "agreement", -->

<!--     # Decision -->
<!--     "decision", -->
<!--     "decisioncalculator", -->

<!--     # JJ Functions -->
<!--     "statsplot2", -->
<!--     "jjbarstats", -->
<!--     "jjbetweenstats", -->
<!--     "jjcorrmat", -->
<!--     "jjdotplotstats", -->
<!--     "jjhistostats", -->
<!--     "jjpiestats", -->
<!--     "jjscatterstats", -->
<!--     "jjwithinstats" -->
<!-- ) -->

<!-- # ls(getNamespace(name = 'ClinicoPath')) -->

<!-- ``` -->





<!-- ```{r generate Code, include=FALSE} -->
<!-- source(here::here("R", "gc_flows.R")) -->
<!-- ``` -->



<!-- ```{r generatedCode, child=here::here('childRmd', "generatedCodeFlows.Rmd")} -->
<!-- ``` -->