Intro to R training - posting a reprex

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Note: This is an exercise on posting reproducible examples for an R training course

Hello,

I am working on an Ebola dataset. I am trying to create a table with the number of people in each hospital by sex. However, the output table has two rows for each hospital, one assigned m and the other f, however i want one row per hospital with two columns - one for each sex. Any help is appreciated thanks.

install and load packages

pacman::p_load(tidyverse, kableExtra)

data

surv_data ← data.frame(
stringsAsFactors = FALSE,
NA,
case_id = c(“694928”,“86340d”,
“92d002”,“544bd1”,
“6056ba”,“eb5aeb”,
“e64e04”,“5a65bb”,
“2ae019”,“7ca4c0”),
sex = c(“m”,“f”,“f”,“f”,
“f”,“f”,“f”,“m”,
“m”,“m”),
hospital = c(“Other”,
“Port Hospital”,NA,NA,NA,
“Port Hospital”,NA,
“Port Hospital”,
“Other”,
“Port Hospital”)
)

Create a table with the number of people in each hospital by sex

hospital_table ← surv_data %>%
group_by(hospital, sex) %>%
summarise(count = n()) %>%
ungroup() %>%
kable(format = “html”) %>%
kable_styling(full_width = FALSE) %>%
column_spec(1, bold = TRUE) %>%
row_spec(0, bold = TRUE, color = “white”, background = “#0073e6”) %>%
scroll_box(width = “500px”, height = “300px”)

hospital_table

2 Likes
2

Hello,

You can use the pivot_wider() function to transform the data in this way, see below:

# loading packages
library(tidyverse)

# creating fake data
surv_data <- data.frame(
  stringsAsFactors = FALSE,
  case_id = c(
    "694928", "86340d",
    "92d002", "544bd1",
    "6056ba", "eb5aeb",
    "e64e04", "5a65bb",
    "2ae019", "7ca4c0"
  ),
  sex = c(
    "m", "f", "f", "f",
    "f", "f", "f", "m",
    "m", "m"
  ),
  hospital = c(
    "Other",
    "Port Hospital", NA_character_, NA_character_, NA_character_,
    "Port Hospital", NA_character_,
    "Port Hospital",
    "Other",
    "Port Hospital"
  )
)

surv_data |>
    group_by(hospital, sex) |>
    summarise(count = n(), .groups = "drop") |>
    pivot_wider(names_from = sex, values_from = count)
#> # A tibble: 3 × 3
#>   hospital          m     f
#>   <chr>         <int> <int>
#> 1 Other             2    NA
#> 2 Port Hospital     2     2
#> 3 <NA>             NA     4

Created on 2024-03-12 with reprex v2.1.0

Session info 
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All the best,

Tim

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