StatAid: Your Statistics Helper

# Building a Prod-Ready, Robust Shiny Application.
#
# README: each step of the dev files is optional, and you don't have to
# fill every dev scripts before getting started.
# 01_start.R should be filled at start.
# 02_dev.R should be used to keep track of your development during the project.
# 03_deploy.R should be used once you need to deploy your app.
#
#
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#### CURRENT FILE: DEV SCRIPT #####
###################################

# Engineering

## Dependencies ----
## Add one line by package you want to add as dependency
usethis::use_package("shinydashboard")
usethis::use_package("dplyr")
usethis::use_package("ggplot2")
usethis::use_package("ggrepel")
usethis::use_package("tidyr")
usethis::use_package("forcats")
usethis::use_package("ggpubr")
usethis::use_package("plotly")
usethis::use_package("magrittr")
usethis::use_package("mgcv")
usethis::use_package("broom")
usethis::use_package("survival")
usethis::use_package("survminer")
usethis::use_package("plotROC")
usethis::use_package("readxl")
usethis::use_package("ROCit")
usethis::use_package("shinyalert")

## Add modules ----
## Create a module infrastructure in R/
golem::add_module(name = "Intro") # Name of the module
golem::add_module(name = "Guide") # Name of the module
golem::add_module(name = "Data")
golem::add_module(name = "Explo_distri")
golem::add_module(name = "Explo_cat")
golem::add_module(name = "Explo_table_des")
golem::add_module(name = "Explo_paired")
golem::add_module(name = "Explo_custom_graph")

## Model
golem::add_module(name = "Model_num_graph_coreg")
golem::add_module(name = "Model_num")
golem::add_module(name = "Model_cat")
golem::add_module(name = "Model_surv")
golem::add_module(name = "Model_surv_km")
golem::add_module(name = "Model_num_multi")
golem::add_module(name = "Model_cat_multi")
golem::add_module(name = "Model_surv_multi")
golem::add_module(name = "ROC")

## Bioinfo
golem::add_module(name = "Data_merge")
golem::add_module(name = "Signature_calc")

golem::add_module(name = "Contact") # Name of the module

## Add helper functions ----
## Creates ftc_* and utils_*
golem::add_fct("helpers")
golem::add_utils("helpers")

## External resources
## Creates .js and .css files at inst/app/www
golem::add_js_file("script")
golem::add_js_handler("handlers")
golem::add_css_file("custom")

## Add internal datasets ----
## If you have data in your package
usethis::use_data_raw(name = "my_dataset", open = FALSE)

## Tests ----
## Add one line by test you want to create
usethis::use_test("functions")

# Documentation

## Vignette ----
usethis::use_vignette("StatAid")
devtools::build_vignettes()

## Code coverage ----
## (You'll need GitHub there)
usethis::use_github()
usethis::use_travis()
usethis::use_appveyor()

# You're now set! ----
# go to dev/03_deploy.R
rstudioapi::navigateToFile("dev/03_deploy.R")