Nothing
## ----setup, include = FALSE---------------------------------------------------
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>"
)
#knitr::opts_chunk$set(package.startup.message = FALSE)
options(xtable.comment = FALSE)
## ----software, include = FALSE------------------------------------------------
library(tidyr)
library(dplyr)
library(magrittr)
library(kableExtra)
library(boot)
library(yamlet)
library(tablet)
# options(knitr.table.format = "latex") # not needed since kableExtra 0.9.0
## ----software2, eval = FALSE--------------------------------------------------
# library(tidyr)
# library(dplyr)
# library(magrittr)
# library(kableExtra)
# library(boot)
# library(yamlet)
# library(tablet)
## ---- data--------------------------------------------------------------------
x <- melanoma
x %<>% select(-time, -year)
## ---- easy--------------------------------------------------------------------
x %>%
mutate(
sex = factor(sex),
ulcer = factor(ulcer)
) %>%
tablet %>%
as_kable
## -----------------------------------------------------------------------------
x <- melanoma
x %<>% decorate('
time: [ Survival Time Since Operation, day ]
status:
- End of Study Patient Status
-
- Alive: 2
- Melanoma Death: 1
- Unrelated Death: 3
sex: [ Sex, [ Male: 1, Female: 0 ]]
age: [ Age at Time of Operation, year ]
year: [ Year of Operation, year ]
thickness: [ Tumor Thickness, mm ]
ulcer: [ Ulceration, [ Absent: 0, Present: 1 ]]
')
x %<>% select(-time, -year)
x %<>% group_by(status)
x %<>% resolve
## ----meta---------------------------------------------------------------------
x %>% tablet %>% as_kable
## ----xtable, results = 'asis'-------------------------------------------------
library(xtable)
x %>%
filter(!(status == 'Alive' & sex == 'Male')) %>%
tablet %>% as_xtable(format_value = function(x,...)x) %>%
print(
booktabs = TRUE,
include.rownames = FALSE
)
## ---- grouped-----------------------------------------------------------------
x %<>% mutate(class = status) # copy the current group
x %<>% modify(class, label = 'class') # change its label
levels(x$status) <- c('Alive','Melanoma','Unrelated') # tweak current group
levels(x$class) <- c(' ', 'Death', 'Death') # cluster groups
x %<>% group_by(class, status) # nest groups
x %>% tablet %>% as_kable # render
## ---- transposed--------------------------------------------------------------
x %<>% group_by(status, sex)
x %<>% select(-class)
x %>%
tablet %>%
as_kable %>%
kable_styling(latex_options = 'scale_down')
## ---- transposed2-------------------------------------------------------------
x %<>% group_by(status, ulcer)
x %>%
tablet %>%
as_kable %>%
kable_styling(latex_options = 'scale_down')
## ---- transposed3-------------------------------------------------------------
x %<>% group_by(status, ulcer, sex)
x %>%
tablet %>%
as_kable %>%
kable_styling(latex_options = 'scale_down') # %>% landscape ?
## ---- aesthetics--------------------------------------------------------------
x %<>% group_by(status)
x %>%
tablet(
fac = NULL,
lab ~ name,
`Median (range)` ~ med + ' (' + min + ' - ' + max + ')'
) %>%
as_kable
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