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top_freq

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dr. M.S. (Matthijs) Berends
2018-06-20 14:47:37 +02:00
parent 4a027f3c34
commit a9bd5472d0
10 changed files with 152 additions and 12 deletions
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35
man/freq.Rd
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@ -3,6 +3,7 @@
\name{freq}
\alias{freq}
\alias{frequency_tbl}
\alias{top_freq}
\title{Frequency table}
\usage{
freq(x, sort.count = TRUE, nmax = getOption("max.print.freq"),
@ -12,6 +13,8 @@ freq(x, sort.count = TRUE, nmax = getOption("max.print.freq"),
frequency_tbl(x, sort.count = TRUE, nmax = getOption("max.print.freq"),
na.rm = TRUE, row.names = TRUE, markdown = FALSE,
as.data.frame = FALSE, digits = 2, sep = " ")
top_freq(f, n)
}
\arguments{
\item{x}{data}
@ -31,12 +34,24 @@ frequency_tbl(x, sort.count = TRUE, nmax = getOption("max.print.freq"),
\item{digits}{how many significant digits are to be used for numeric values (not for the items themselves, that depends on \code{\link{getOption}("digits")})}
\item{sep}{a character string to separate the terms when selecting multiple columns}
\item{f}{a frequency table as \code{data.frame}, used as \code{freq(..., as.data.frame = TRUE)}}
\item{n}{number of top \emph{n} items to return, use -n for the bottom \emph{n} items. It will include more than \code{n} rows if there are ties.}
}
\value{
\itemize{
\item{When using \code{as.data.frame = FALSE} (default): only printed text}
\item{When using \code{as.data.frame = TRUE}: a \code{data.frame} object with an additional class \code{"frequency_tbl"}}
}
}
\description{
Create a frequency table of a vector of data, a single column or a maximum of 9 columns of a data frame. Supports markdown for reports.
Create a frequency table of a vector of data, a single column or a maximum of 9 columns of a data frame. Supports markdown for reports. \code{top_freq} can be used to get the top/bottom \emph{n} items of a frequency table, with counts as names.
}
\details{
For numeric values, the next values will be calculated and shown into the header:
This package also has a vignette available about this function, run: \code{browseVignettes("AMR")} to read it.
For numeric values of any class, these additional values will be calculated and shown into the header:
\itemize{
\item{Mean, using \code{\link[base]{mean}}}
\item{Standard deviation, using \code{\link[stats]{sd}}}
@ -45,6 +60,15 @@ For numeric values, the next values will be calculated and shown into the header
\item{Coefficient of variation (CV), the standard deviation divided by the mean}
\item{Coefficient of quartile variation (CQV, sometimes called coefficient of dispersion), calculated as \code{(Q3 - Q1) / (Q3 + Q1)} using \code{\link{quantile}} with \code{type = 6} as quantile algorithm to comply with SPSS standards}
}
For dates and times of any class, these additional values will be calculated and shown into the header:
\itemize{
\item{Oldest, using \code{\link[base]{min}}}
\item{Newest, using \code{\link[base]{max}}, with difference between newest and oldest}
\item{Median, using \code{\link[stats]{median}}, with percentage since oldest}
}
The function \code{top_freq} uses \code{\link[dplyr]{top_n}} internally and will include more than \code{n} rows if there are ties.
}
\examples{
library(dplyr)
@ -68,6 +92,13 @@ years <- septic_patients \%>\%
mutate(year = format(date, "\%Y")) \%>\%
select(year) \%>\%
freq(as.data.frame = TRUE)
# get top 10 bugs of hospital A as a vector
septic_patients \%>\%
filter(hospital_id == "A") \%>\%
select(bactid) \%>\%
freq(as.data.frame = TRUE) \%>\%
top_freq(10)
}
\keyword{freq}
\keyword{frequency}

3
man/print.Rd
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@ -4,6 +4,7 @@
\alias{print}
\alias{print.tbl_df}
\alias{print.tbl}
\alias{print.frequency_tbl}
\alias{print.data.table}
\title{Printing Data Tables and Tibbles}
\usage{
@ -12,6 +13,8 @@
\method{print}{tbl}(x, ...)
\method{print}{frequency_tbl}(x, ...)
\method{print}{data.table}(x, print.keys = FALSE, ...)
}
\arguments{