tabulr | R Documentation |

`tabulr`

is a front-end to the `tables`

package's
`tabular`

function so that the user can take
advantage of variable annotations used by the `Hmisc`

package,
particular those created by the `label`

, `units`

, and
`upData`

functions. When a variable appears in a
`tabular`

function, the
variable `x`

is found in the `data`

argument or in the parent
environment, and the `labelLatex`

function is used to create
a LaTeX label. By default any units of measurement are right justified
in the current LaTeX tabular field using `hfill`

; use `nofill`

to list variables for which `units`

are not right-justified with
`hfill`

. Once the label is constructed, the variable name is
preceeded by `Heading("LaTeX label")*x`

in the formula before it is
passed to `tabular`

. `nolabel`

can be used to
specify variables for which labels are ignored.

`tabulr`

also replaces `trio`

with `table_trio`

, `N`

with `table_N`

, and `freq`

with `table_freq`

in the
formula.

`table_trio`

is a function that takes a numeric vector and computes
the three quartiles and optionally the mean and standard deviation, and
outputs a LaTeX-formatted character string representing the results. By
default, calculated statistics are formatted with 3 digits to the left
and 1 digit to the right of the decimal point. Running
`table_options(left=l, right=r)`

will use `l`

and `r`

digits instead. Other options that can be given to
`table_options`

are `prmsd=TRUE`

to add mean +/- standard
deviation to the result, `pn=TRUE`

to add the sample size,
`bold=TRUE`

to set the median in bold face, ```
showfreq='all',
'low', 'high'
```

used by the `table_freq`

function, `pctdec`

,
specifying the number of places to the right of the decimal point for
percentages (default is zero), and
`npct='both','numerator','denominator','none'`

used by
`table_formatpct`

to control what appears after the percent.
Option `pnformat`

may be specified to control the formatting for
`pn`

. The default is `"(n=..)"`

. Specify
`pnformat="non"`

to suppress `"n="`

. `pnwhen`

specifies
when to print the number of observations. The default is
`"always"`

. Specify `pnwhen="ifna"`

to include `n`

only
if there are missing values in the vector being processed.

`tabulr`

substitutes `table_N`

for `N`

in the formula.
This is used to create column headings for the number of observations,
without a row label.

`table_freq`

analyzes a character variable to compute, for a single
output cell, the percents, numerator, and denominator for each category,
or optimally just the maximum or minimum, as specified by
`table_options(showfreq)`

.

`table_formatpct`

is a function that formats percents depending on
settings of options in `table_options`

.

`nFm`

is a function that calls `sprintf`

to format
numeric values to have a specific number of digits to the `left`

and to the `right`

of the point.

`table_latexdefs`

writes (by default) to the console a set of LaTeX
definitions that can be invoked at any point thereafter in a `knitr`

or
`sweave`

document by naming the macro, preceeded by a single
slash. The `blfootnote`

macro is called with a single LaTeX
argument which will appear as a footnote without a number.
`keytrio`

invokes `blfootnote`

to define the output of
`table_trio`

if mean and SD are not included. If mean and SD are
included, use `keytriomsd`

.

```
tabulr(formula, data = NULL, nolabel=NULL, nofill=NULL, ...)
table_trio(x)
table_freq(x)
table_formatpct(num, den)
nFm(x, left, right, neg=FALSE, pad=FALSE, html=FALSE)
table_latexdefs(file='')
```

`formula` |
a formula suitable for |

`data` |
a data frame or list. If omitted, the parent environment is assumed to contain the variables. |

`nolabel` |
a formula such as |

`nofill` |
a formula such as |

`...` |
other arguments to |

`x` |
a numeric vector |

`num` |
a single numerator or vector of numerators |

`den` |
a single denominator |

`left` , `right` |
number of places to the left and right of the decimal point, respectively |

`neg` |
set to |

`pad` |
set to |

`html` |
set to |

`file` |
location of output of |

`tabulr`

returns an object of class `"tabular"`

Frank Harrell

`tabular`

, `label`

,
`latex`

, `summaryM`

```
## Not run:
n <- 400
set.seed(1)
d <- data.frame(country=factor(sample(c('US','Canada','Mexico'), n, TRUE)),
sex=factor(sample(c('Female','Male'), n, TRUE)),
age=rnorm(n, 50, 10),
sbp=rnorm(n, 120, 8))
d <- upData(d,
preghx=ifelse(sex=='Female', sample(c('No','Yes'), n, TRUE), NA),
labels=c(sbp='Systolic BP', age='Age', preghx='Pregnancy History'),
units=c(sbp='mmHg', age='years'))
contents(d)
require(tables)
invisible(booktabs()) # use booktabs LaTeX style for tabular
g <- function(x) {
x <- x[!is.na(x)]
if(length(x) == 0) return('')
paste(latexNumeric(nFm(mean(x), 3, 1)),
' \hfill{\smaller[2](', length(x), ')}', sep='')
}
tab <- tabulr((age + Heading('Females')*(sex == 'Female')*sbp)*
Heading()*g + (age + sbp)*Heading()*trio ~
Heading()*country*Heading()*sex, data=d)
# Formula after interpretation by tabulr:
# (Heading('Age\hfill {\smaller[2] years}') * age + Heading("Females")
# * (sex == "Female") * Heading('Systolic BP {\smaller[2] mmHg}') * sbp)
# * Heading() * g + (age + sbp) * Heading() * table_trio ~ Heading()
# * country * Heading() * sex
cat('\begin{landscape}\n')
cat('\begin{minipage}{\textwidth}\n')
cat('\keytrio\n')
latex(tab)
cat('\end{minipage}\end{landscape}\n')
getHdata(pbc)
pbc <- upData(pbc, moveUnits=TRUE)
# Convert to character to prevent tabular from stratifying
for(x in c('sex', 'stage', 'spiders')) {
pbc[[x]] <- as.character(pbc[[x]])
label(pbc[[x]]) <- paste(toupper(substring(x, 1, 1)), substring(x, 2), sep='')
}
table_options(pn=TRUE, showfreq='all')
tab <- tabulr((bili + albumin + protime + age) *
Heading()*trio +
(sex + stage + spiders)*Heading()*freq ~ drug, data=pbc)
latex(tab)
## End(Not run)
```

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