ascii (version 2.4)

ascii.anova: Export R objects to several markup languages

Description

Convert an R object to an ascii object, which can then be printed with asciidoc, txt2tags, reStructuredText, org, textile or pandoc syntax.

Usage

# S3 method for anova
ascii(
  x,
  include.rownames = TRUE,
  include.colnames = TRUE,
  rownames = NULL,
  colnames = NULL,
  format = "f",
  digits = 2,
  decimal.mark = ".",
  na.print = "",
  caption = NULL,
  caption.level = NULL,
  width = 0,
  frame = NULL,
  grid = NULL,
  valign = NULL,
  header = TRUE,
  footer = FALSE,
  align = NULL,
  col.width = 1,
  style = NULL,
  tgroup = NULL,
  n.tgroup = NULL,
  talign = "c",
  tvalign = "middle",
  tstyle = "h",
  bgroup = NULL,
  n.bgroup = NULL,
  balign = "c",
  bvalign = "middle",
  bstyle = "h",
  lgroup = NULL,
  n.lgroup = NULL,
  lalign = "c",
  lvalign = "middle",
  lstyle = "h",
  rgroup = NULL,
  n.rgroup = NULL,
  ralign = "c",
  rvalign = "middle",
  rstyle = "h",
  ...
)

# S3 method for data.frame ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for default ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", list.type = "bullet", ... )

# S3 method for glm ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for summary.glm ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for describe ascii(x, condense = TRUE, ...)

# S3 method for summary.formula.response ascii( x, vnames = c("labels", "names"), prUnits = TRUE, lgroup = list(dimnames(stats)[[1]], if (ul) vlabels else at$vname[at$vname != ""]), n.lgroup = list(1, at$nlevels), include.rownames = FALSE, include.colnames = TRUE, format = "nice", caption = paste(at$ylabel, if (ns > 1) paste(" by", if (ul) at$strat.label else at$strat.name), " N = ", at$n, if (at$nmiss) paste(", ", at$nmiss, " Missing", sep = ""), sep = ""), caption.level = "s", header = TRUE, ... )

# S3 method for summary.formula.reverse ascii( x, digits, prn = any(n != N), pctdig = 0, npct = c("numerator", "both", "denominator", "none"), exclude1 = TRUE, vnames = c("labels", "names"), prUnits = TRUE, sep = "/", formatArgs = NULL, round = NULL, prtest = c("P", "stat", "df", "name"), prmsd = FALSE, pdig = 3, eps = 0.001, caption = paste("Descriptive Statistics", if (length(x$group.label)) paste(" by", x$group.label) else paste(" (N = ", x$N, ")", sep = ""), sep = ""), caption.level = "s", include.rownames = FALSE, include.colnames = TRUE, colnames = gl, header = TRUE, lgroup = lgr, n.lgroup = n.lgr, rgroup = rgr, n.rgroup = n.rgr, rstyle = "d", ... )

# S3 method for summary.formula.cross ascii( x, twoway = nvar == 2, prnmiss = any(stats$Missing > 0), prn = TRUE, formatArgs = NULL, caption = a$heading, caption.level = "s", include.rownames = FALSE, include.colnames = TRUE, header = TRUE, format = "nice", lgroup = v, n.lgroup = rep(length(z), length(v)), ... )

# S3 method for htest ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for list ascii(x, caption = NULL, caption.level = NULL, list.type = "bullet", ...)

# S3 method for packageDescription ascii(x, caption = NULL, caption.level = NULL, list.type = "label", ...)

# S3 method for sessionInfo ascii(x, locale = TRUE, ...)

# S3 method for lm ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for summary.lm ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for matrix ascii( x, include.rownames = FALSE, include.colnames = FALSE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = FALSE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for survfit ascii( x, scale = 1, print.rmean = getOption("survfit.print.rmean"), rmean = getOption("survfit.rmean"), include.rownames = TRUE, include.colnames = TRUE, header = TRUE, ... )

# S3 method for table ascii( x, include.rownames = TRUE, include.colnames = TRUE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = TRUE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for integer ascii( x, include.rownames = FALSE, include.colnames = FALSE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = FALSE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for numeric ascii( x, include.rownames = FALSE, include.colnames = FALSE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = FALSE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for character ascii( x, include.rownames = FALSE, include.colnames = FALSE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = FALSE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for factor ascii( x, include.rownames = FALSE, include.colnames = FALSE, rownames = NULL, colnames = NULL, format = "f", digits = 2, decimal.mark = ".", na.print = "", caption = NULL, caption.level = NULL, width = 0, frame = NULL, grid = NULL, valign = NULL, header = FALSE, footer = FALSE, align = NULL, col.width = 1, style = NULL, tgroup = NULL, n.tgroup = NULL, talign = "c", tvalign = "middle", tstyle = "h", bgroup = NULL, n.bgroup = NULL, balign = "c", bvalign = "middle", bstyle = "h", lgroup = NULL, n.lgroup = NULL, lalign = "c", lvalign = "middle", lstyle = "h", rgroup = NULL, n.rgroup = NULL, ralign = "c", rvalign = "middle", rstyle = "h", ... )

# S3 method for proc_time ascii(x, include.rownames = FALSE, include.colnames = TRUE, ...)

ascii(x, ...)

Value

This function returns an object of class "asciiTable", "asciiList" or "asciiMixed".

Arguments

x

An R object of class found among methods(ascii). If x is a list, it should be a list of character strings (it will produce a bulleted list output by default).

include.rownames

logical. If TRUE the rows names are printed. Default value depends of class of x.

include.colnames

logical. If TRUE the columns names are printed. Default value depends of class of x.

rownames

Character vector (replicated or truncated as necessary) indicating rownames of the corresponding rows. If NULL (default) the row names are not modified

colnames

Character vector (replicated or truncated as necessary) indicating colnames of the corresponding columns. If NULL (default) the column names are not modified

format

Character vector or matrix indicating the format for the corresponding columns. These values are passed to the formatC function. Use "d" (for integers), "f", "e", "E", "g", "G", "fg" (for reals), or "s" (for strings). "f" gives numbers in the usual xxx.xxx format; "e" and "E" give n.ddde+nn or n.dddE+nn (scientific format); "g" and "G" put x[i] into scientific format only if it saves space to do so. "fg" uses fixed format as "f", but digits as number of significant digits. Note that this can lead to quite long result strings. Finaly, "nice" is like "f", but with 0 digits if x is an integer. Default depends on the class of x.

digits

Numeric vector of length equal to the number of columns of the resulting table (otherwise it will be replicated or truncated as necessary) indicating the number of digits to display in the corresponding columns. Default is 2.

decimal.mark

The character to be used to indicate the numeric decimal point. Default is ".".

na.print

The character string specifying how NA should be formatted specially. Default is "".

caption

Character vector of length 1 containing the table's caption or title. Set to "" to suppress the caption. Default value is NULL.

caption.level

Character or numeric vector of length 1 containing the caption's level. Can take the following values: 0 to 5, "." (block titles in asciidoc markup), "s" (strong), "e" (emphasis), "m" (monospaced) or "" (no markup). Default is NULL.

width

Numeric vector of length one containing the table width relative to the available width (expressed as a percentage value, 1... 99). Default is 0 (all available width).

frame

Character vector of length one. Defines the table border, and can take the following values: "topbot" (top and bottom), "all" (all sides), "none" and "sides" (left and right). The default value is NULL.

grid

Character vector of length one. Defines which ruler lines are drawn between table rows and columns, and can take the following values: "all", "rows", "cols" and "none". Default is NULL.

valign

Vector or matrix indicating vertical alignment of all cells in table. Can take the following values: "top", "bottom" and "middle". Default is "".

header

logical or numeric. If TRUE or 1, 2, ..., the first line(s) of the table is (are) emphasized. The default value depends of class of x.

footer

logical or numeric. If TRUE or 1, the last line(s) of the table is (are) emphasized. The default value depends of class of x.

align

Vector or matrix indicating the alignment of the corresponding columns. Can be composed with "r" (right), "l" (left) and "c" (center). Default value is NULL.

col.width

Numeric vector of length equal to the number of columns of the resulting table (otherwise it will be replicated or truncated as necessary) indicating width of the corresponding columns (integer proportional values). Default is 1.

style

Character vector or matrix indicating the style of the corresponding columns. Can be composed with "d" (default), "s" (strong), "e" (emphasis), "m" (monospaced), "h" (header) "a" (cells can contain any of the AsciiDoc elements that are allowed inside document), "l" (literal), "v" (verse; all line breaks are retained). Default is NULL.

tgroup

Character vector or a list of character vectors defining major top column headings. The default is to have none (NULL).

n.tgroup

A numeric vector or a list of numeric vectors containing the number of columns for which each element in tgroup is a heading. For example, specify tgroup=c("Major 1","Major 2"), n.tgroup=c(3,3) if "Major 1" is to span columns 1-3 and "Major 2" is to span columns 4-6.

talign

Character vector of length one defining alignment of major top column headings.

tvalign

Character vector of length one defining vertical alignment of major top column headings.

tstyle

Character vector of length one indicating the style of major top column headings

bgroup

Character vector or list of character vectors defining major bottom column headings. The default is to have none (NULL).

n.bgroup

A numeric vector containing the number of columns for which each element in bgroup is a heading.

balign

Character vector of length one defining alignment of major bottom column headings.

bvalign

Character vector of length one defining vertical alignment of major bottom column headings.

bstyle

Character vector of length one indicating the style of major bottom column headings

lgroup

Character vector or list of character vectors defining major left row headings. The default is to have none (NULL).

n.lgroup

A numeric vector containing the number of rows for which each element in lgroup is a heading. Column names count in the row numbers if include.colnames = TRUE.

lalign

Character vector of length one defining alignment of major left row headings.

lvalign

Character vector of length one defining vertical alignment of major left row headings.

lstyle

Character vector of length one indicating the style of major left row headings

rgroup

Character vector or list of character vectors defining major right row headings. The default is to have none (NULL).

n.rgroup

A numeric vector containing the number of rows for which each element in rgroup is a heading. Column names count in the row numbers if include.colnames = TRUE.

ralign

Character vector of length one defining alignment of major right row headings.

rvalign

Character vector of length one defining vertical alignment of major right row headings.

rstyle

Character vector of length one indicating the style of major right row headings

...

Additional arguments. (Currently ignored.)

list.type

Character vector of length one indicating the list type ("bullet", "number", "label" or "none"). If "label", names(list) is used for labels. Default is "bullet".

condense

default is TRUE to condense the output with regard to the 5 lowest and highest values and the frequency table (describe() in package Hmisc).

vnames

By default, tables and plots are usually labeled with variable labels (see summary.formula in package Hmisc).

prUnits

set to FALSE to suppress printing or latexing units attributes of variables (see summary.formula in package Hmisc).

prn

set to TRUE to print the number of non-missing observations on the current (row) variable (see summary.formula in package Hmisc).

pctdig

number of digits to the right of the decimal place for printing percentages (see summary.formula in package Hmisc).

npct

specifies which counts are to be printed to the right of percentages (see summary.formula in package Hmisc).

exclude1

by default, method="reverse" objects will be printed, plotted, or typeset by removing redundant entries from percentage tables for categorical variables (see summary.formula in package Hmisc).

sep

character to use to separate quantiles when printing method="reverse" tables (see summary.formula in package Hmisc).

formatArgs

a list containing other arguments to pass to format.default (see summary.formula in package Hmisc).

round

Specify round to round the quantiles and optional mean and standard deviation to round digits after the decimal point (see summary.formula in package Hmisc).

prtest

a vector of test statistic components to print if test=TRUE (see summary.formula in package Hmisc).

prmsd

set to TRUE to print mean and SD after the three quantiles, for continuous variables (see summary.formula in package Hmisc).

pdig

number of digits to the right of the decimal place for printing P-values. (see summary.formula in package Hmisc).

eps

P-values less than eps will be printed as < eps (see summary.formula in package Hmisc).

twoway

controls whether the resulting table will be printed in enumeration format or as a two-way table (the default) (see summary.formula in package Hmisc).

prnmiss

set to FALSE to suppress printing counts of missing values

locale

show locale information?

scale

A numeric value to rescale the survival time, e.g., if the input data to survfit were in days, scale=365 would scale the printout to years (see print.survfit() in package survival).

print.rmean

Option for computation and display of the restricted mean (see print.survfit() in package survival).

rmean

Option for computation and display of the restricted mean (see print.survfit() in package survival).

Author

David Hajage dhajage@gmail.com

Details

The nature of the generated output depends on the class of x. For example, summary.table objects produce a bulleted list while data.frame objects produce a table of the entire data.frame.

Sometimes, arguments are not active, depending of the features implemented in the markup language generated. All arguments are active when asciidoc syntax is produced.

The available method functions for ascii are given by methods(ascii). Users can extend the list of available classes by writing methods for the generic function ascii. All method functions should return an object of class "ascii".

Examples

Run this code
op <- options(asciiType = "org")
local({x <- 1:10; y <- rnorm(length(x),1+x); ascii(anova(lm(y~x)))})
options(op)
op <- options(asciiType = "org")
ascii(data.frame(a = 1:3, b = 2), include.rownames = FALSE, digits = 0)
options(op)
op <- options(asciiType = "org")
local({x <- 1:10; y <- rnorm(length(x), 1+x); ascii(glm(y~x)) })
options(op)
op <- options(asciiType = "org")
local({x <- 1:10; y <- rnorm(length(x), 1+x); ascii(summary(glm(y~x))) })
options(op)
op <- options(asciiType = "org")
local({x <- rnorm(100); ascii(t.test(x))})
options(op)
op <- options(asciiType = "org")
ascii(list(a=1,b=2), list.type="label")
options(op)
op <- options(asciiType = "org")
ascii(sessionInfo())
options(op)
op <- options(asciiType = "org")
local({x <- 1:10; y <- rnorm(length(x), 1+x); ascii(lm(y~x)) })
options(op)
op <- options(asciiType = "org")
local({x <- 1:10; y <- rnorm(length(x), 1+x); ascii(summary(lm(y~x))) })
options(op)
op <- options(asciiType = "org")
ascii(matrix(1:4,2,2,FALSE,list(1:2,c("A","B"))), TRUE, TRUE, digits=0)
options(op)
op <- options(asciiType = "org")
ascii(table(rbinom(100,5,.3)), digits=0)
options(op)
op <- options(asciiType = "org")
ascii(c(a=1L,b=2L),FALSE,TRUE,digits=0)
options(op)
op <- options(asciiType = "org")
ascii(seq(0,1,length=11),digits=1)
options(op)
op <- options(asciiType = "org")
ascii(c(a="A",b="B"),FALSE,TRUE,header=TRUE)
options(op)
op <- options(asciiType = "org")
ascii(factor(c("A","B")),FALSE)
options(op)
op <- options(asciiType = "org")
ascii(system.time(sum(1:1e6)), header=TRUE)
options(op)
data(esoph)
ascii(esoph[1:10,])
tab <- table(esoph$agegp, esoph$alcgp)
ascii(tab)
print(ascii(tab), type = "t2t")
print(ascii(tab), type = "rest")
print(ascii(tab), type = "org")
ascii(summary(tab))

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