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< img src = "../logo.png" class = "logo" alt = "" > < h1 > Shiny-app< / h1 >
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< small class = "dont-index" > Source: < a href = "https://github.com/agdamsbo/REDCapCAST/blob/main/vignettes/Shiny-app.Rmd" class = "external-link" > < code > vignettes/Shiny-app.Rmd< / code > < / a > < / small >
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< div class = "d-none name" > < code > Shiny-app.Rmd< / code > < / div >
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< p > To make the easiest possible transition from spreadsheet/dataset to
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REDCap, I have created a small app, which adds a graphical interface to
the casting of a data dictionary and data upload. Install the package
and launch the app as follows:< / p >
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< div class = "sourceCode" id = "cb1" > < pre class = "downlit sourceCode r" >
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< code class = "sourceCode R" > < span > < span class = "fu" > REDCapCAST< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "../reference/shiny_cast.html" > shiny_cast< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span > < / code > < / pre > < / div >
< p > The app primarily wraps one function:
< code > < a href = "../reference/ds2dd_detailed.html" > ds2dd_detailed()< / a > < / code > .< / p >
< div class = "sourceCode" id = "cb2" > < pre class = "downlit sourceCode r" >
< code class = "sourceCode R" > < span > < span class = "kw" > < a href = "https://rdrr.io/r/base/library.html" class = "external-link" > library< / a > < / span > < span class = "op" > (< / span > < span class = "va" > < a href = "https://github.com/agdamsbo/REDCapCAST" class = "external-link" > REDCapCAST< / a > < / span > < span class = "op" > )< / span > < / span >
< span > < span class = "va" > ds< / span > < span class = "op" > < -< / span > < span class = "fu" > < a href = "../reference/REDCap_split.html" > REDCap_split< / a > < / span > < span class = "op" > (< / span > < / span >
< span > records < span class = "op" > =< / span > < span class = "va" > redcapcast_data< / span > ,< / span >
< span > metadata < span class = "op" > =< / span > < span class = "va" > redcapcast_meta< / span > ,< / span >
< span > forms < span class = "op" > =< / span > < span class = "st" > "all"< / span > < / span >
< span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
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< span > < span class = "fu" > < a href = "../reference/redcap_wider.html" > redcap_wider< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> Joining with `by = join_by(record_id)`< / span > < / span >
< span > < span class = "co" > #> Joining with `by = join_by(record_id)`< / span > < / span >
< span > < span class = "co" > #> Joining with `by = join_by(record_id)`< / span > < / span >
< span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/str.html" class = "external-link" > str< / a > < / span > < span class = "op" > (< / span > < span class = "va" > ds< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> 'data.frame': 6 obs. of 52 variables:< / span > < / span >
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< span > < span class = "co" > #> $ event_age_2_follow2 : num NA NA NA 118 NA NA< / span > < / span >
< span > < span class = "co" > #> $ event_age_3_follow1 : num NA NA NA NA NA NA< / span > < / span >
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< span > < span class = "co" > #> $ event_type_2_follow1 : chr NA NA "ICH" "TIA" ...< / span > < / span >
< span > < span class = "co" > #> $ event_type_2_follow2 : chr NA NA "TIA" "ICH" ...< / span > < / span >
< span > < span class = "co" > #> $ event_type_3_follow1 : chr NA NA NA NA ...< / span > < / span >
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< span > < span class = "co" > #> $ new_event_complete_3_follow1: chr NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete_3_follow2: chr NA NA "Incomplete" "Complete" ...< / span > < / span > < / code > < / pre > < / div >
< div class = "sourceCode" id = "cb3" > < pre class = "downlit sourceCode r" >
< code class = "sourceCode R" > < span > < span class = "va" > ds< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "../reference/ds2dd_detailed.html" > ds2dd_detailed< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > purrr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://purrr.tidyverse.org/reference/pluck.html" class = "external-link" > pluck< / a > < / span > < span class = "op" > (< / span > < span class = "st" > "data"< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/str.html" class = "external-link" > str< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> tibble [6 × < / span > < / span >
< span > < span class = "co" > #> $ record_id : num [1:6] 1 2 3 4 5 6< / span > < / span >
< span > < span class = "co" > #> $ cpr : chr [1:6] "1203401OB4" "0102342303" "2301569823" "0204051342" ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion : Date[1:6], format: "2023-03-13" "2023-03-01" ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion_time : chr [1:6] "12:38:49" "10:38:57" "12:01:07" "20:39:19" ...< / span > < / span >
< span > < span class = "co" > #> $ dob : Date[1:6], format: "1940-03-12" "1934-02-01" ...< / span > < / span >
< span > < span class = "co" > #> $ age : num [1:6] 83 89.1 66.1 117.9 126.2 ...< / span > < / span >
< span > < span class = "co" > #> $ age_integer : num [1:6] 83 89 66 117 126 91< / span > < / span >
< span > < span class = "co" > #> $ sex : chr [1:6] "female" "male" "male" "female" ...< / span > < / span >
< span > < span class = "co" > #> $ cohabitation : chr [1:6] "Yes" "Yes" "No" NA ...< / span > < / span >
< span > < span class = "co" > #> $ hypertension : chr [1:6] "No" "No" "Yes" NA ...< / span > < / span >
< span > < span class = "co" > #> $ diabetes : chr [1:6] "Yes" "No" "Yes" NA ...< / span > < / span >
< span > < span class = "co" > #> $ region : chr [1:6] "East" "South" "North" NA ...< / span > < / span >
< span > < span class = "co" > #> $ baseline_data_start_complete: chr [1:6] "Incomplete" "Incomplete" "Incomplete" "Incomplete" ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_assessed_inclusion : chr [1:6] "Yes" "Yes" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_assessed_follow1 : chr [1:6] NA "Yes" "Yes" NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_assessed_follow2 : chr [1:6] NA NA "Yes" NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_date_inclusion : Date[1:6], format: "2023-03-13" "2023-03-07" ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_date_follow1 : Date[1:6], format: NA "2023-03-09" ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_date_follow2 : Date[1:6], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_score_inclusion : num [1:6] 1 1 NA NA NA NA< / span > < / span >
< span > < span class = "co" > #> $ mrs_score_follow1 : num [1:6] NA 3 2 NA NA NA< / span > < / span >
< span > < span class = "co" > #> $ mrs_score_follow2 : num [1:6] NA NA 1 NA NA NA< / span > < / span >
< span > < span class = "co" > #> $ mrs_complete_inclusion : chr [1:6] "Incomplete" "Incomplete" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_complete_follow1 : chr [1:6] NA "Incomplete" "Incomplete" NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_complete_follow2 : chr [1:6] NA NA "Incomplete" NA ...< / span > < / span >
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< span > < span class = "co" > #> $ con_mrs : Factor w/ 2 levels "FALSE","TRUE": NA NA NA NA NA NA< / span > < / span >
< span > < span class = "co" > #> $ con_calc : Factor w/ 2 levels "FALSE","TRUE": NA NA NA NA NA NA< / span > < / span >
2024-11-18 16:51:34 +01:00
< span > < span class = "co" > #> $ consensus_complete : chr [1:6] NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime_1_follow1 : POSIXct[1:6], format: NA "2024-01-18 12:49:42" ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime_1_follow2 : POSIXct[1:6], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_age_1_follow1 : num [1:6] NA NA NA 96 127 NA< / span > < / span >
< span > < span class = "co" > #> $ event_age_1_follow2 : num [1:6] NA NA NA 118 NA NA< / span > < / span >
< span > < span class = "co" > #> $ event_type_1_follow1 : chr [1:6] NA "TIA" "AIS" "TIA" ...< / span > < / span >
< span > < span class = "co" > #> $ event_type_1_follow2 : chr [1:6] NA NA "ICH" "AIS" ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete_1_follow1: chr [1:6] NA "Incomplete" "Incomplete" "Complete" ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete_1_follow2: chr [1:6] NA NA "Incomplete" "Complete" ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime_2_follow1 : POSIXct[1:6], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime_2_follow2 : POSIXct[1:6], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime_3_follow1 : POSIXct[1:6], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime_3_follow2 : POSIXct[1:6], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_age_2_follow1 : num [1:6] NA NA NA 105 127 NA< / span > < / span >
< span > < span class = "co" > #> $ event_age_2_follow2 : num [1:6] NA NA NA 118 NA NA< / span > < / span >
< span > < span class = "co" > #> $ event_age_3_follow1 : num [1:6] NA NA NA NA NA NA< / span > < / span >
< span > < span class = "co" > #> $ event_age_3_follow2 : num [1:6] NA NA NA 118 NA NA< / span > < / span >
< span > < span class = "co" > #> $ event_type_2_follow1 : chr [1:6] NA NA "ICH" "TIA" ...< / span > < / span >
< span > < span class = "co" > #> $ event_type_2_follow2 : chr [1:6] NA NA "TIA" "ICH" ...< / span > < / span >
< span > < span class = "co" > #> $ event_type_3_follow1 : chr [1:6] NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_type_3_follow2 : chr [1:6] NA NA "AIS" "Unknown" ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete_2_follow1: chr [1:6] NA NA "Incomplete" "Complete" ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete_2_follow2: chr [1:6] NA NA "Incomplete" "Incomplete" ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete_3_follow1: chr [1:6] NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete_3_follow2: chr [1:6] NA NA "Incomplete" "Complete" ...< / span > < / span > < / code > < / pre > < / div >
< div class = "sourceCode" id = "cb4" > < pre class = "downlit sourceCode r" >
< code class = "sourceCode R" > < span > < span class = "va" > ds< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "../reference/ds2dd_detailed.html" > ds2dd_detailed< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > purrr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://purrr.tidyverse.org/reference/pluck.html" class = "external-link" > pluck< / a > < / span > < span class = "op" > (< / span > < span class = "st" > "meta"< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/head.html" class = "external-link" > head< / a > < / span > < span class = "op" > (< / span > < span class = "fl" > 10< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> < span style = "color: #949494;" > # A tibble: 10 × < / span > < / span > < / span >
< span > < span class = "co" > #> field_name form_name section_header field_type field_label < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #949494; font-style: italic;" > < chr> < / span > < span style = "color: #949494; font-style: italic;" > < chr> < / span > < span style = "color: #949494; font-style: italic;" > < lgl> < / span > < span style = "color: #949494; font-style: italic;" > < chr> < / span > < span style = "color: #949494; font-style: italic;" > < chr> < / span > < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 1< / span > record_id data < span style = "color: #BB0000;" > NA< / span > text record_id < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 2< / span > cpr data < span style = "color: #BB0000;" > NA< / span > text cpr < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 3< / span > inclusion data < span style = "color: #BB0000;" > NA< / span > text inclusion < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 4< / span > inclusion_time data < span style = "color: #BB0000;" > NA< / span > text inclusion_time< / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 5< / span > dob data < span style = "color: #BB0000;" > NA< / span > text dob < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 6< / span > age data < span style = "color: #BB0000;" > NA< / span > text age < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 7< / span > age_integer data < span style = "color: #BB0000;" > NA< / span > text age_integer < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 8< / span > sex data < span style = "color: #BB0000;" > NA< / span > text sex < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 9< / span > cohabitation data < span style = "color: #BB0000;" > NA< / span > text cohabitation < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BCBCBC;" > 10< / span > hypertension data < span style = "color: #BB0000;" > NA< / span > text hypertension < / span > < / span >
2024-11-19 13:05:57 +01:00
< span > < span class = "co" > #> < span style = "color: #949494;" > # ℹ < chr> , field_note < lgl> ,< / span > < / span > < / span >
2024-11-18 16:51:34 +01:00
< span > < span class = "co" > #> < span style = "color: #949494;" > # text_validation_type_or_show_slider_number < chr> ,< / span > < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #949494;" > # text_validation_min < lgl> , text_validation_max < lgl> , identifier < lgl> ,< / span > < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #949494;" > # branching_logic < lgl> , required_field < lgl> , custom_alignment < lgl> ,< / span > < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #949494;" > # question_number < lgl> , matrix_group_name < lgl> , matrix_ranking < lgl> ,< / span > < / span > < / span >
< span > < span class = "co" > #> < span style = "color: #949494;" > # field_annotation < lgl> < / span > < / span > < / span > < / code > < / pre > < / div >
< p > Different data formats are accepted, which all mostly implements the
< code > < a href = "https://readr.tidyverse.org/reference/parse_guess.html" class = "external-link" > readr::col_guess()< / a > < / code > functionality to parse column
classes.< / p >
< p > To ensure uniformity in data import this parsing has been implemented
on its own to use with < code > < a href = "../reference/ds2dd_detailed.html" > ds2dd_detailed()< / a > < / code > or any other data
set for that matter:< / p >
< div class = "sourceCode" id = "cb5" > < pre class = "downlit sourceCode r" >
< code class = "sourceCode R" > < span > < span class = "va" > ds_parsed< / span > < span class = "op" > < -< / span > < span class = "va" > redcapcast_data< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > dplyr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://dplyr.tidyverse.org/reference/mutate.html" class = "external-link" > mutate< / a > < / span > < span class = "op" > (< / span > < span class = "fu" > dplyr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://dplyr.tidyverse.org/reference/across.html" class = "external-link" > across< / a > < / span > < span class = "op" > (< / span > < span class = "fu" > dplyr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://tidyselect.r-lib.org/reference/everything.html" class = "external-link" > everything< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > ,< span class = "va" > as.character< / span > < span class = "op" > )< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "../reference/parse_data.html" > parse_data< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/str.html" class = "external-link" > str< / a > < / span > < span class = "op" > (< / span > < span class = "va" > ds_parsed< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> tibble [25 × < / span > < / span >
< span > < span class = "co" > #> $ record_id : num [1:25] 1 2 2 2 3 3 3 3 3 3 ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_event_name : chr [1:25] "inclusion" "inclusion" "follow1" "follow1" ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_repeat_instrument : chr [1:25] NA NA NA "New Event (?)" ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_repeat_instance : num [1:25] NA NA NA 1 NA NA NA 1 2 1 ...< / span > < / span >
< span > < span class = "co" > #> $ cpr : chr [1:25] "1203401OB4" "0102342303" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion : Date[1:25], format: "2023-03-13" "2023-03-01" ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion_time : 'hms' num [1:25] 12:38:49 10:38:57 NA NA ...< / span > < / span >
< span > < span class = "co" > #> ..- attr(*, "units")= chr "secs"< / span > < / span >
< span > < span class = "co" > #> $ dob : Date[1:25], format: "1940-03-12" "1934-02-01" ...< / span > < / span >
< span > < span class = "co" > #> $ age : num [1:25] 83 89.1 NA NA 66.1 ...< / span > < / span >
< span > < span class = "co" > #> $ age_integer : num [1:25] 83 89 NA NA 66 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ sex : chr [1:25] "female" "male" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ cohabitation : chr [1:25] "Yes" "Yes" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ hypertension : chr [1:25] "No" "No" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ diabetes : chr [1:25] "Yes" "No" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ region : chr [1:25] "East" "South" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ baseline_data_start_complete: chr [1:25] "Incomplete" "Incomplete" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_assessed : chr [1:25] "Yes" "Yes" "Yes" NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_date : Date[1:25], format: "2023-03-13" "2023-03-07" ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_score : num [1:25] 1 1 3 NA NA 2 1 NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_complete : chr [1:25] "Incomplete" "Incomplete" "Incomplete" NA ...< / span > < / span >
< span > < span class = "co" > #> $ con_mrs : logi [1:25] NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ con_calc : logi [1:25] NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ consensus_complete : chr [1:25] NA NA "Incomplete" NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime : POSIXct[1:25], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_age : num [1:25] NA NA NA NA NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_type : chr [1:25] NA NA NA "TIA" ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete : chr [1:25] NA NA NA "Incomplete" ...< / span > < / span >
< span > < span class = "co" > #> - attr(*, "problems")=< externalptr> < / span > < / span > < / code > < / pre > < / div >
< p > It will ignore specified columns, which is neat for numeric-looking
strings like cpr-with a leading 0:< / p >
< div class = "sourceCode" id = "cb6" > < pre class = "downlit sourceCode r" >
< code class = "sourceCode R" > < span > < span class = "va" > redcapcast_data< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > dplyr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://dplyr.tidyverse.org/reference/mutate.html" class = "external-link" > mutate< / a > < / span > < span class = "op" > (< / span > < span class = "fu" > dplyr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://dplyr.tidyverse.org/reference/across.html" class = "external-link" > across< / a > < / span > < span class = "op" > (< / span > < span class = "fu" > dplyr< / span > < span class = "fu" > ::< / span > < span class = "fu" > < a href = "https://tidyselect.r-lib.org/reference/everything.html" class = "external-link" > everything< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > ,< span class = "va" > as.character< / span > < span class = "op" > )< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "../reference/parse_data.html" > parse_data< / a > < / span > < span class = "op" > (< / span > ignore.vars < span class = "op" > =< / span > < span class = "fu" > < a href = "https://rdrr.io/r/base/c.html" class = "external-link" > c< / a > < / span > < span class = "op" > (< / span > < span class = "st" > "record_id"< / span > ,< span class = "st" > "cpr"< / span > < span class = "op" > )< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/str.html" class = "external-link" > str< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> tibble [25 × < / span > < / span >
< span > < span class = "co" > #> $ record_id : chr [1:25] "1" "2" "2" "2" ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_event_name : chr [1:25] "inclusion" "inclusion" "follow1" "follow1" ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_repeat_instrument : chr [1:25] NA NA NA "New Event (?)" ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_repeat_instance : num [1:25] NA NA NA 1 NA NA NA 1 2 1 ...< / span > < / span >
< span > < span class = "co" > #> $ cpr : chr [1:25] "1203401OB4" "0102342303" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion : Date[1:25], format: "2023-03-13" "2023-03-01" ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion_time : 'hms' num [1:25] 12:38:49 10:38:57 NA NA ...< / span > < / span >
< span > < span class = "co" > #> ..- attr(*, "units")= chr "secs"< / span > < / span >
< span > < span class = "co" > #> $ dob : Date[1:25], format: "1940-03-12" "1934-02-01" ...< / span > < / span >
< span > < span class = "co" > #> $ age : num [1:25] 83 89.1 NA NA 66.1 ...< / span > < / span >
< span > < span class = "co" > #> $ age_integer : num [1:25] 83 89 NA NA 66 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ sex : chr [1:25] "female" "male" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ cohabitation : chr [1:25] "Yes" "Yes" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ hypertension : chr [1:25] "No" "No" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ diabetes : chr [1:25] "Yes" "No" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ region : chr [1:25] "East" "South" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ baseline_data_start_complete: chr [1:25] "Incomplete" "Incomplete" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_assessed : chr [1:25] "Yes" "Yes" "Yes" NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_date : Date[1:25], format: "2023-03-13" "2023-03-07" ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_score : num [1:25] 1 1 3 NA NA 2 1 NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_complete : chr [1:25] "Incomplete" "Incomplete" "Incomplete" NA ...< / span > < / span >
< span > < span class = "co" > #> $ con_mrs : logi [1:25] NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ con_calc : logi [1:25] NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ consensus_complete : chr [1:25] NA NA "Incomplete" NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime : POSIXct[1:25], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_age : num [1:25] NA NA NA NA NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_type : chr [1:25] NA NA NA "TIA" ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete : chr [1:25] NA NA NA "Incomplete" ...< / span > < / span >
< span > < span class = "co" > #> - attr(*, "problems")=< externalptr> < / span > < / span > < / code > < / pre > < / div >
< p > Column classes can be passed to < code > < a href = "../reference/parse_data.html" > parse_data()< / a > < / code > .< / p >
< p > Making a few crude assumption for factorising data,
< code > < a href = "../reference/numchar2fct.html" > numchar2fct()< / a > < / code > factorises numerical and character vectors
based on a set threshold for unique values:< / p >
< div class = "sourceCode" id = "cb7" > < pre class = "downlit sourceCode r" >
< code class = "sourceCode R" > < span > < span class = "va" > mtcars< / span > < span class = "op" > |> < / span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/str.html" class = "external-link" > str< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> 'data.frame': 32 obs. of 11 variables:< / span > < / span >
< span > < span class = "co" > #> $ mpg : num 21 21 22.8 21.4 18.7 18.1 14.3 24.4 22.8 19.2 ...< / span > < / span >
< span > < span class = "co" > #> $ cyl : num 6 6 4 6 8 6 8 4 4 6 ...< / span > < / span >
< span > < span class = "co" > #> $ disp: num 160 160 108 258 360 ...< / span > < / span >
< span > < span class = "co" > #> $ hp : num 110 110 93 110 175 105 245 62 95 123 ...< / span > < / span >
< span > < span class = "co" > #> $ drat: num 3.9 3.9 3.85 3.08 3.15 2.76 3.21 3.69 3.92 3.92 ...< / span > < / span >
< span > < span class = "co" > #> $ wt : num 2.62 2.88 2.32 3.21 3.44 ...< / span > < / span >
< span > < span class = "co" > #> $ qsec: num 16.5 17 18.6 19.4 17 ...< / span > < / span >
< span > < span class = "co" > #> $ vs : num 0 0 1 1 0 1 0 1 1 1 ...< / span > < / span >
< span > < span class = "co" > #> $ am : num 1 1 1 0 0 0 0 0 0 0 ...< / span > < / span >
< span > < span class = "co" > #> $ gear: num 4 4 4 3 3 3 3 4 4 4 ...< / span > < / span >
< span > < span class = "co" > #> $ carb: num 4 4 1 1 2 1 4 2 2 4 ...< / span > < / span >
< span > < span class = "va" > mtcars< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "../reference/numchar2fct.html" > numchar2fct< / a > < / span > < span class = "op" > (< / span > numeric.threshold < span class = "op" > =< / span > < span class = "fl" > 6< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/str.html" class = "external-link" > str< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span >
< span > < span class = "co" > #> 'data.frame': 32 obs. of 11 variables:< / span > < / span >
< span > < span class = "co" > #> $ mpg : num 21 21 22.8 21.4 18.7 18.1 14.3 24.4 22.8 19.2 ...< / span > < / span >
< span > < span class = "co" > #> $ cyl : Factor w/ 3 levels "4","6","8": 2 2 1 2 3 2 3 1 1 2 ...< / span > < / span >
< span > < span class = "co" > #> $ disp: num 160 160 108 258 360 ...< / span > < / span >
< span > < span class = "co" > #> $ hp : num 110 110 93 110 175 105 245 62 95 123 ...< / span > < / span >
< span > < span class = "co" > #> $ drat: num 3.9 3.9 3.85 3.08 3.15 2.76 3.21 3.69 3.92 3.92 ...< / span > < / span >
< span > < span class = "co" > #> $ wt : num 2.62 2.88 2.32 3.21 3.44 ...< / span > < / span >
< span > < span class = "co" > #> $ qsec: num 16.5 17 18.6 19.4 17 ...< / span > < / span >
< span > < span class = "co" > #> $ vs : Factor w/ 2 levels "0","1": 1 1 2 2 1 2 1 2 2 2 ...< / span > < / span >
< span > < span class = "co" > #> $ am : Factor w/ 2 levels "0","1": 2 2 2 1 1 1 1 1 1 1 ...< / span > < / span >
< span > < span class = "co" > #> $ gear: Factor w/ 3 levels "3","4","5": 2 2 2 1 1 1 1 2 2 2 ...< / span > < / span >
< span > < span class = "co" > #> $ carb: Factor w/ 6 levels "1","2","3","4",..: 4 4 1 1 2 1 4 2 2 4 ...< / span > < / span > < / code > < / pre > < / div >
< div class = "sourceCode" id = "cb8" > < pre class = "downlit sourceCode r" >
< code class = "sourceCode R" > < span > < span class = "va" > ds_parsed< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "../reference/numchar2fct.html" > numchar2fct< / a > < / span > < span class = "op" > (< / span > numeric.threshold < span class = "op" > =< / span > < span class = "fl" > 2< / span > < span class = "op" > )< / span > < span class = "op" > |> < / span > < / span >
< span > < span class = "fu" > < a href = "https://rdrr.io/r/utils/str.html" class = "external-link" > str< / a > < / span > < span class = "op" > (< / span > < span class = "op" > )< / span > < / span >
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< span > < span class = "co" > #> Warning: There were 13 warnings in `dplyr::mutate()`.< / span > < / span >
< span > < span class = "co" > #> The first warning was:< / span > < / span >
< span > < span class = "co" > #> < span style = "color: #00BBBB;" > ℹ < / span > In argument: `dplyr::across(...)`.< / span > < / span >
< span > < span class = "co" > #> Caused by warning in `.roman2numeric()`:< / span > < / span >
< span > < span class = "co" > #> < span style = "color: #BBBB00;" > !< / span > invalid roman numerals: inclusion inclusion follow1 follow1 inclusion follow1 follow2 follow1 follow1 follow2 follow2 follow2 inclusion follow1 follow2 follow1 follow1 follow2 follow2 follow2 inclusion follow1 follow1 follow1 inclusion< / span > < / span >
< span > < span class = "co" > #> < span style = "color: #00BBBB;" > ℹ < / span > Run `dplyr::last_dplyr_warnings()` to see the 12 remaining warnings.< / span > < / span >
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< span > < span class = "co" > #> tibble [25 × < / span > < / span >
< span > < span class = "co" > #> $ record_id : num [1:25] 1 2 2 2 3 3 3 3 3 3 ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_event_name : Factor w/ 3 levels "inclusion","follow1",..: 1 1 2 2 1 2 3 2 2 3 ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_repeat_instrument : Factor w/ 1 level "New Event (?)": NA NA NA 1 NA NA NA 1 1 1 ...< / span > < / span >
< span > < span class = "co" > #> $ redcap_repeat_instance : num [1:25] NA NA NA 1 NA NA NA 1 2 1 ...< / span > < / span >
< span > < span class = "co" > #> $ cpr : chr [1:25] "1203401OB4" "0102342303" NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion : Date[1:25], format: "2023-03-13" "2023-03-01" ...< / span > < / span >
< span > < span class = "co" > #> $ inclusion_time : 'hms' num [1:25] 12:38:49 10:38:57 NA NA ...< / span > < / span >
< span > < span class = "co" > #> ..- attr(*, "units")= chr "secs"< / span > < / span >
< span > < span class = "co" > #> $ dob : Date[1:25], format: "1940-03-12" "1934-02-01" ...< / span > < / span >
< span > < span class = "co" > #> $ age : num [1:25] 83 89.1 NA NA 66.1 ...< / span > < / span >
< span > < span class = "co" > #> $ age_integer : num [1:25] 83 89 NA NA 66 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ sex : Factor w/ 2 levels "female","male": 1 2 NA NA 2 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ cohabitation : Factor w/ 2 levels "Yes","No": 1 1 NA NA 2 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ hypertension : Factor w/ 2 levels "No","Yes": 1 1 NA NA 2 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ diabetes : Factor w/ 2 levels "Yes","No": 1 2 NA NA 1 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ region : Factor w/ 3 levels "East","South",..: 1 2 NA NA 3 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ baseline_data_start_complete: Factor w/ 2 levels "Incomplete","Complete": 1 1 NA NA 1 NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_assessed : Factor w/ 1 level "Yes": 1 1 1 NA NA 1 1 NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_date : Date[1:25], format: "2023-03-13" "2023-03-07" ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_score : num [1:25] 1 1 3 NA NA 2 1 NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ mrs_complete : Factor w/ 1 level "Incomplete": 1 1 1 NA 1 1 1 NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ con_mrs : logi [1:25] NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ con_calc : logi [1:25] NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ consensus_complete : Factor w/ 1 level "Incomplete": NA NA 1 NA NA 1 1 NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_datetime : POSIXct[1:25], format: NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_age : num [1:25] NA NA NA NA NA NA NA NA NA NA ...< / span > < / span >
< span > < span class = "co" > #> $ event_type : Factor w/ 4 levels "TIA","AIS","ICH",..: NA NA NA 1 NA NA NA 2 3 3 ...< / span > < / span >
< span > < span class = "co" > #> $ new_event_complete : Factor w/ 2 levels "Incomplete","Complete": NA NA NA 1 NA NA NA 1 1 1 ...< / span > < / span >
< span > < span class = "co" > #> - attr(*, "problems")=< externalptr> < / span > < / span > < / code > < / pre > < / div >
2024-02-27 12:56:38 +01:00
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< p > Developed by Andreas Gammelgaard Damsbo, Paul Egeler.< / p >
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< p > Site built with < a href = "https://pkgdown.r-lib.org/" class = "external-link" > pkgdown< / a > 2.1.1.< / p >
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2024-02-27 12:56:38 +01:00
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