% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/internal.R
\name{GOChord}
\alias{GOChord}
\title{Displays the relationship between genes and terms.}
\usage{
GOChord(data, title, space, gene.order, gene.size, gene.space, nlfc = 1,
  lfc.col, lfc.min, lfc.max, ribbon.col, border.size, process.label, limit)
}
\arguments{
\item{data}{The matrix represents the binary relation (1= is related to, 0= 
is not related to) between a set of genes (rows) and processes (columns); a
column for the logFC of the genes is optional}

\item{title}{The title (on top) of the plot}

\item{space}{The space between the chord segments of the plot}

\item{gene.order}{A character vector defining the order of the displayed gene
labels}

\item{gene.size}{The size of the gene labels}

\item{gene.space}{The space between the gene labels and the segement of the 
logFC}

\item{nlfc}{Defines the number of logFC columns (default=1)}

\item{lfc.col}{The fill color for the logFC specified in the following form: 
c(color for low values, color for the mid point, color for the high values)}

\item{lfc.min}{Specifies the minimium value of the logFC scale (default = -3)}

\item{lfc.max}{Specifies the maximum value of the logFC scale (default = 3)}

\item{ribbon.col}{The background color of the ribbons}

\item{border.size}{Defines the size of the ribbon borders}

\item{process.label}{The size of the legend entries}

\item{limit}{A vector with two cutoff values (default= c(0,0)).}
}
\description{
The GOChord function generates a circularly composited overview 
  of selected/specific genes and their assigned processes or terms. More 
  generally, it joins genes and processes via ribbons in an intersection-like
  graph.
}