-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathNAMESPACE
245 lines (244 loc) · 7.8 KB
/
NAMESPACE
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
# Generated by roxygen2: do not edit by hand
export(.addTestToCodeCounts)
export(.addTestTotibbleWithValueSummary)
export(assertAnalysisSettings_CodeWAS)
export(assertAnalysisSettings_CohortDemographics)
export(assertAnalysisSettings_CohortOverlaps)
export(assertAnalysisSettings_GWAS)
export(assertAnalysisSettings_timeCodeWAS)
export(checkResults_CodeWAS)
export(checkResults_CohortDemographics)
export(checkResults_CohortOverlaps)
export(checkResults_timeCodeWAS)
export(execute_CodeWAS)
export(execute_CohortDemographics)
export(execute_CohortOverlaps)
export(execute_GWAS)
export(execute_timeCodeWAS)
export(fcr_setUpLogger)
export(mod_analysisSettings_GWAS_server)
export(mod_analysisSettings_codeWAS_server)
export(mod_analysisSettings_codeWAS_ui)
export(mod_analysisSettings_cohortDemographics_server)
export(mod_analysisSettings_cohortDemographics_ui)
export(mod_analysisSettings_cohortOverlaps_server)
export(mod_analysisSettings_cohortOverlaps_ui)
export(mod_analysisSettings_timeCodeWAS_server)
export(mod_analysisSettings_timeCodeWAS_ui)
export(mod_fct_covariateSelector_ui)
export(mod_fct_formTimeWindows_server)
export(mod_fct_formTimeWindows_ui)
export(mod_resultsVisualisation_CodeWAS_server)
export(mod_resultsVisualisation_CodeWAS_ui)
export(mod_resultsVisualisation_CohortsDemographics_server)
export(mod_resultsVisualisation_CohortsDemographics_ui)
export(mod_resultsVisualisation_CohortsOverlaps_server)
export(mod_resultsVisualisation_CohortsOverlaps_ui)
export(mod_resultsVisualisation_TimeCodeWAS_server)
export(mod_resultsVisualisation_TimeCodeWAS_ui)
export(mod_resultsVisualisation_server)
export(mod_resultsVisualisation_ui)
export(readAndParseYalm)
export(run_app)
importFrom(DBI,dbGetQuery)
importFrom(DatabaseConnector,connect)
importFrom(DatabaseConnector,disconnect)
importFrom(DatabaseConnector,querySql)
importFrom(HadesExtras,removeCohortIdsFromCohortOverlapsTable)
importFrom(ParallelLogger,logError)
importFrom(ParallelLogger,logInfo)
importFrom(ParallelLogger,logWarn)
importFrom(SqlRender,readSql)
importFrom(SqlRender,render)
importFrom(SqlRender,translate)
importFrom(UpSetR,fromExpression)
importFrom(UpSetR,upset)
importFrom(checkmate,assertCharacter)
importFrom(checkmate,assertDirectoryExists)
importFrom(checkmate,assertList)
importFrom(checkmate,assertNumeric)
importFrom(checkmate,assertR6)
importFrom(checkmate,assertString)
importFrom(checkmate,assertSubset)
importFrom(checkmate,assertTibble)
importFrom(checkmate,assert_list)
importFrom(checkmate,checkFileExists)
importFrom(checkmate,checkSubset)
importFrom(dplyr,across)
importFrom(dplyr,anti_join)
importFrom(dplyr,arrange)
importFrom(dplyr,as_tibble)
importFrom(dplyr,bind_cols)
importFrom(dplyr,bind_rows)
importFrom(dplyr,case_when)
importFrom(dplyr,collect)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,if_else)
importFrom(dplyr,inner_join)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,pull)
importFrom(dplyr,row_number)
importFrom(dplyr,select)
importFrom(dplyr,setdiff)
importFrom(dplyr,slice_head)
importFrom(dplyr,starts_with)
importFrom(dplyr,summarise)
importFrom(dplyr,summarize)
importFrom(dplyr,tbl)
importFrom(dplyr,transmute)
importFrom(dplyr,ungroup)
importFrom(duckdb,dbConnect)
importFrom(duckdb,dbDisconnect)
importFrom(duckdb,dbListTables)
importFrom(duckdb,dbWriteTable)
importFrom(duckdb,duckdb)
importFrom(forcats,fct_reorder)
importFrom(ggiraph,geom_point_interactive)
importFrom(ggiraph,girafe)
importFrom(ggiraph,girafeOutput)
importFrom(ggiraph,opts_hover)
importFrom(ggiraph,opts_selection)
importFrom(ggiraph,opts_sizing)
importFrom(ggiraph,opts_toolbar)
importFrom(ggiraph,opts_tooltip)
importFrom(ggiraph,opts_zoom)
importFrom(ggiraph,renderGirafe)
importFrom(ggplot2,aes)
importFrom(ggplot2,coord_cartesian)
importFrom(ggplot2,element_rect)
importFrom(ggplot2,element_text)
importFrom(ggplot2,expand_limits)
importFrom(ggplot2,facet_grid)
importFrom(ggplot2,geom_col)
importFrom(ggplot2,geom_hline)
importFrom(ggplot2,geom_segment)
importFrom(ggplot2,geom_text)
importFrom(ggplot2,geom_vline)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggplot_build)
importFrom(ggplot2,ggplot_gtable)
importFrom(ggplot2,guides)
importFrom(ggplot2,labs)
importFrom(ggplot2,position_dodge2)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_fill_discrete)
importFrom(ggplot2,scale_size_manual)
importFrom(ggplot2,scale_x_continuous)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,sym)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_minimal)
importFrom(ggplotify,as.ggplot)
importFrom(ggrepel,geom_text_repel)
importFrom(grDevices,cairo_pdf)
importFrom(grDevices,dev.off)
importFrom(grid,gpar)
importFrom(grid,unit)
importFrom(gtable,gtable_add_grob)
importFrom(htmltools,HTML)
importFrom(htmltools,hr)
importFrom(htmltools,includeMarkdown)
importFrom(htmltools,tagList)
importFrom(htmltools,tags)
importFrom(lubridate,days)
importFrom(lubridate,now)
importFrom(lubridate,weeks)
importFrom(lubridate,years)
importFrom(purrr,discard)
importFrom(purrr,map)
importFrom(purrr,map2_chr)
importFrom(purrr,pmap_df)
importFrom(reactable,reactable)
importFrom(reactable,reactableOutput)
importFrom(reactable,renderReactable)
importFrom(readr,write_csv)
importFrom(scales,number)
importFrom(scales,percent)
importFrom(scales,rescale)
importFrom(shiny,NS)
importFrom(shiny,actionButton)
importFrom(shiny,br)
importFrom(shiny,checkboxInput)
importFrom(shiny,column)
importFrom(shiny,div)
importFrom(shiny,downloadButton)
importFrom(shiny,downloadHandler)
importFrom(shiny,fileInput)
importFrom(shiny,fixedRow)
importFrom(shiny,fluidPage)
importFrom(shiny,fluidRow)
importFrom(shiny,h4)
importFrom(shiny,icon)
importFrom(shiny,insertUI)
importFrom(shiny,isTruthy)
importFrom(shiny,moduleServer)
importFrom(shiny,numericInput)
importFrom(shiny,observe)
importFrom(shiny,observeEvent)
importFrom(shiny,onFlushed)
importFrom(shiny,p)
importFrom(shiny,parseQueryString)
importFrom(shiny,plotOutput)
importFrom(shiny,reactive)
importFrom(shiny,reactiveVal)
importFrom(shiny,renderPlot)
importFrom(shiny,renderTable)
importFrom(shiny,renderText)
importFrom(shiny,renderUI)
importFrom(shiny,req)
importFrom(shiny,selectInput)
importFrom(shiny,shinyApp)
importFrom(shiny,tabPanel)
importFrom(shiny,tableOutput)
importFrom(shiny,tabsetPanel)
importFrom(shiny,tagList)
importFrom(shiny,tags)
importFrom(shiny,textInput)
importFrom(shiny,uiOutput)
importFrom(shiny,updateTextInput)
importFrom(shiny,verbatimTextOutput)
importFrom(shinyFeedback,feedbackWarning)
importFrom(shinyFeedback,hideFeedback)
importFrom(shinyFeedback,showFeedbackWarning)
importFrom(shinyFeedback,useShinyFeedback)
importFrom(shinyWidgets,awesomeCheckbox)
importFrom(shinyWidgets,chooseSliderSkin)
importFrom(shinyWidgets,noUiSliderInput)
importFrom(shinyWidgets,pickerInput)
importFrom(shinyWidgets,pickerOptions)
importFrom(shinyWidgets,updateNoUiSliderInput)
importFrom(shinyWidgets,updatePickerInput)
importFrom(shinyWidgets,wNumbFormat)
importFrom(shinybrowser,detect)
importFrom(shinydashboard,dashboardBody)
importFrom(shinydashboard,dashboardHeader)
importFrom(shinydashboard,dashboardPage)
importFrom(shinydashboard,dashboardSidebar)
importFrom(shinydashboard,menuItem)
importFrom(shinydashboard,sidebarMenu)
importFrom(shinydashboard,tabItem)
importFrom(shinydashboard,tabItems)
importFrom(shinyjs,hidden)
importFrom(shinyjs,toggle)
importFrom(shinyjs,toggleState)
importFrom(shinyjs,useShinyjs)
importFrom(stringr,str_c)
importFrom(stringr,str_detect)
importFrom(stringr,str_extract)
importFrom(stringr,str_extract_all)
importFrom(stringr,str_remove)
importFrom(stringr,str_remove_all)
importFrom(stringr,str_replace_all)
importFrom(stringr,str_split)
importFrom(stringr,str_sub)
importFrom(stringr,str_trunc)
importFrom(stringr,str_wrap)
importFrom(tibble,as_tibble)
importFrom(tibble,tibble)
importFrom(tibble,tribble)
importFrom(tidyr,nest)
importFrom(tidyr,separate)
importFrom(yaml,as.yaml)
importFrom(yaml,yaml.load)