Migrate documentation to roxygen2md

Change-Id: If5370cd207770f3e05c6f5cd063bd2a414b92bcb
diff --git a/man/misc-functions.Rd b/man/misc-functions.Rd
index e3c0630..aad5c80 100644
--- a/man/misc-functions.Rd
+++ b/man/misc-functions.Rd
@@ -20,7 +20,7 @@
 geom_freq_by_year_ci(mapping = aes(ymin = conf.low, ymax = conf.high), ...)
 }
 \arguments{
-\item{df}{table returned from \code{\link{frequencyQuery}}}
+\item{df}{table returned from \code{\link[=frequencyQuery]{frequencyQuery()}}}
 
 \item{x}{column with the observed absolute frequency.}
 
@@ -47,10 +47,12 @@
 string or vector of strings with clipped off common prefixes and suffixes
 }
 \description{
-Using \code{\link{prop.test}}, \code{ci} adds three columns to a data frame:
-1. relative frequency (\code{f})
-2. lower bound of a confidence interval (\code{ci.low})
-3. upper bound of a confidence interval
+Using \code{\link[=prop.test]{prop.test()}}, \code{ci} adds three columns to a data frame:
+\enumerate{
+\item relative frequency (\code{f})
+\item lower bound of a confidence interval (\code{ci.low})
+\item upper bound of a confidence interval
+}
 
 Convenience function for converting frequency tables to instances per
 million.
@@ -62,10 +64,10 @@
 by clipping off prefixes and suffixes that are common to all query strings.
 
 Experimental convenience function for plotting typical frequency by year graphs with confidence intervals using ggplot2.
-\bold{Warning:} This function may be moved to a new package.
+\strong{Warning:} This function may be moved to a new package.
 }
 \details{
-Given a table with columns \code{f}, \code{conf.low}, and \code{conf.high}, \code{ipm} ads a \code{column ipm}
+Given a table with columns \code{f}, \code{conf.low}, and \code{conf.high}, \code{ipm} ads a \verb{column ipm}
 und multiplies conf.low and \code{conf.high} with 10^6.
 }
 \examples{
@@ -106,5 +108,5 @@
 }
 }
 \seealso{
-\code{ci} is already included in \code{\link{frequencyQuery}}
+\code{ci} is already included in \code{\link[=frequencyQuery]{frequencyQuery()}}
 }